Transcription factor stress-related proteins and methods of use in plants

ABSTRACT

A transgenic plant transformed by a Transcription Factor Stress-Related Protein (TFSRP) coding nucleic acid, wherein expression of the nucleic acid sequence in the plant results in increased tolerance to environmental stress as compared to a wild type variety of the plant. Also provided are agricultural products, including seeds, produced by the transgenic plants. Also provided are isolated TFSRPs, and isolated nucleic acid coding TFSRPs, and vectors and host cells containing the latter.

CROSS REFERENCE TO RELATED APPLICATIONS

This application is a continuation application of allowed U.S.Nonprovisional application Ser. No. 10/716,089 filed Nov. 18, 2008 nowU.S. Pat. No. 7,161,063, which is a divisional application of U.S.Nonprovisional patent application Ser. No. 09/828,303 filed Apr. 6,2001, and now U.S. Pat. No. 6,677,504, which claims the priority benefitof U.S. Provisional Application Ser. No. 60/196,001 filed Apr. 7, 2000,both of which are hereby incorporated in their entirety.

BACKGROUND OF THE INVENTION

1. Field of the Invention

This invention relates generally to nucleic acid sequences encodingproteins that are associated with abiotic stress responses and abioticstress tolerance in plants. In particular, this invention relates tonucleic acid sequences encoding proteins that confer drought, cold,and/or salt tolerance to plants.

2. Background Art

Abiotic environmental stresses, such as drought stress, salinity stress,heat stress, and cold stress, are major limiting factors of plant growthand productivity. Crop losses and crop yield losses of major crops suchas rice, maize (corn) and wheat caused by these stresses represent asignificant economic and political factor and contribute to foodshortages in many underdeveloped countries.

Plants are typically exposed during their life cycle to conditions ofreduced environmental water content. Most plants have evolved strategiesto protect themselves against these conditions of desiccation. However,if the severity and duration of the drought conditions are too great,the effects on plant development, growth and yield of most crop plantsare profound. Furthermore, most of the crop plants are very susceptibleto higher salt concentrations in the soil. Continuous exposure todrought and high salt causes major alterations in the plant metabolism.These great changes in metabolism ultimately lead to cell death andconsequently yield losses.

Developing stress-tolerant plants is a strategy that has the potentialto solve or mediate at least some of these problems. However,traditional plant breeding strategies to develop new lines of plantsthat exhibit resistance (tolerance) to these types of stresses arerelatively slow and require specific resistant lines for crossing withthe desired line. Limited germplasm resources for stress tolerance andincompatibility in crosses between distantly related plant speciesrepresent significant problems encountered in conventional breeding.Additionally, the cellular processes leading to drought, cold and salttolerance in model, drought- and/or salt-tolerant plants are complex innature and involve multiple mechanisms of cellular adaptation andnumerous metabolic pathways. This multi-component nature of stresstolerance has not only made breeding for tolerance largely unsuccessful,but has also limited the ability to genetically engineer stresstolerance plants using biotechnological methods.

Therefore, what is needed is the identification of the genes andproteins involved in these multi-component processes leading to stresstolerance. Elucidating the function of genes expressed in stresstolerant plants will not only advance our understanding of plantadaptation and tolerance to environmental stresses, but also may provideimportant information for designing new strategies for crop improvement.

One model plant used in the study of stress tolerance is Arabidopsisthaliana. There are at least four different signal-transduction pathwaysleading to stress tolerance in the model plant Arabidopsis thaliana.These pathways are under the control of distinct transcription factors(Shinozaki et al., 2000 Curr. Op. Pl. Biol. 3:217-23). Regulators ofgenes, especially transcription factors, involved in these tolerancepathways are particularly suitable for engineering tolerance into plantsbecause a single gene can activate a whole cascade of genes leading tothe tolerant phenotype. Consequently, transcription factors areimportant targets in the quest to identify genes conferring stresstolerance to plants.

One transcription factor that has been identified in the prior art isthe Arabidopsis thaliana transcription factor CBF (Jaglo-Ottosen et al.,1998 Science 280:104-6). Over-expression of this gene in Arabidopsisconferred drought tolerance to this plant (Kasuga et al., 1999 NatureBiotech. 17:287-91). However, CBF is the only example to date of atranscription factor able to confer drought tolerance to plants uponover-expression.

Although some genes that are involved in stress responses in plants havebeen characterized, the characterization and cloning of plant genes thatconfer stress tolerance remains largely incomplete and fragmented. Forexample, certain studies have indicated that drought and salt stress insome plants may be due to additive gene effects, in contrast to otherresearch that indicates specific genes are transcriptionally activatedin vegetative tissue of plants under osmotic stress conditions. Althoughit is generally assumed that stress-induced proteins have a role intolerance, direct evidence is still lacking, and the functions of manystress-responsive genes are unknown.

There is a need, therefore, to identify genes expressed in stresstolerant plants that have the capacity to confer stress resistance toits host plant and to other plant species. Newly generated stresstolerant plants will have many advantages, such as increasing the rangethat crop plants can be cultivated by, for example, decreasing the waterrequirements of a plant species.

SUMMARY OF THE INVENTION

This invention fulfills in part the need to identify new, uniquetranscription factors capable of conferring stress tolerance to plantsupon over-expression. The present invention provides a transgenic plantcell transformed by a Transcription Factor Stress-Related Protein(TFSRP) coding nucleic acid, wherein expression of the nucleic acidsequence in the plant cell results in increased tolerance toenvironmental stress as compared to a wild type variety of the plantcell. Namely, described herein are the transcription factors 1) CAAT-Boxlike Binding Factor-3 (CABF-3); 2) Zinc Finger-2 (ZF-2) 3) Zinc Finger-3(ZF-3); 4) Zinc Finger-4 (ZF-4); 5) Zinc Finger-5 (ZF-5); 6) AP2 SimilarFactor-2 (APS-2); 7) Sigma Factor Like Factor-1 (SFL-1); and 8) MYBFactor-1 (MYB-1), all from Physcomitrella patens.

The invention provides in some embodiments that the TFSRP and codingnucleic acid are that found in members of the genus Physcomitrella. Inanother preferred embodiment, the nucleic acid and protein are from aPhyscomitrella patens. The invention provides that the environmentalstress can be salinity, drought, temperature, metal, chemical,pathogenic and oxidative stresses, or combinations thereof. In preferredembodiments, the environmental stress can be drought or coldtemperature.

The invention further provides a seed produced by a transgenic planttransformed by a TFSRP coding nucleic acid, wherein the plant is truebreeding for increased tolerance to environmental stress as compared toa wild type variety of the plant. The invention further provides a seedproduced by a transgenic plant expressing a TFSRP, wherein the plant istrue breeding for increased tolerance to environmental stress ascompared to a wild type variety of the plant.

The invention further provides an agricultural product produced by anyof the below-described transgenic plants, plant parts or seeds. Theinvention further provides an isolated TFSRP as described below. Theinvention further provides an isolated TFSRP coding nucleic acid,wherein the TFSRP coding nucleic acid codes for a TFSRP as describedbelow.

The invention further provides an isolated recombinant expression vectorcomprising a TFSRP coding nucleic acid as described below, whereinexpression of the vector in a host cell results in increased toleranceto environmental stress as compared to a wild type variety of the hostcell. The invention further provides a host cell containing the vectorand a plant containing the host cell.

The invention further provides a method of producing a transgenic plantwith a TFSRP coding nucleic acid, wherein expression of the nucleic acidin the plant results in increased tolerance to environmental stress ascompared to a wild type variety of the plant comprising: (a)transforming a plant cell with an expression vector comprising a TFSRPcoding nucleic acid, and (b) generating from the plant cell a transgenicplant with an increased tolerance to environmental stress as compared toa wild type variety of the plant. In preferred embodiments, the TFSRPand TFSRP coding nucleic acid are as described below.

The present invention further provides a method of identifying a novelTFSRP, comprising (a) raising a specific antibody response to a TFSRP,or fragment thereof, as described below; (b) screening putative TFSRPmaterial with the antibody, wherein specific binding of the antibody tothe material indicates the presence of a potentially novel TFSRP; and(c) identifying from the bound material a novel TFSRP in comparison toknown TFSRP. Alternatively, hybridization with nucleic acid probes asdescribed below can be used to identify novel TFSRP nucleic acids.

The present invention also provides methods of modifying stresstolerance of a plant comprising, modifying the expression of a TFSRP inthe plant, wherein the TFSRP is as described below. The inventionprovides that this method can be performed such that the stresstolerance is either increased or decreased. Preferably, stress toleranceis increased in a plant via increasing expression of a TFSRP.

BRIEF DESCRIPTION OF THE DRAWINGS

FIG. 1 shows a diagram of the plant expression vector pBPSSCO22containing the super promoter driving the expression of SEQ ID NOs: 9,10, 11, 12, 13, 14, 15, and 16 (“Desired Gene”). The components are:NPTII kanamycin resistance gene (Hajdukiewicz et al. 1994 Pl. Mol Biol.25:989-98), AtAct2-i promoter (An et al. 1996 Plant J. 10:107-21), OCS3terminator (Weigel et al. 2000 Pl. Physiol. 122: 1003-13).

FIG. 2 shows the results of a drought stress test with over-expressingPpZF-2 transgenic plants and wild-type Arabidopsis lines. The transgeniclines display a tolerant phenotype. Individual transformant lines areshown.

FIG. 3 shows the results of a drought stress test with over-expressingPpZF-3 transgenic plants and wild-type Arabidopsis lines. The transgeniclines display a tolerant phenotype. Individual transformant lines areshown.

FIG. 4 shows the results of a drought stress test with over-expressingPpZF-4 transgenic plants and wild-type Arabidopsis lines. The transgeniclines display a tolerant phenotype. Individual transformant lines areshown.

FIG. 5 shows the results of a drought stress test with over-expressingPpZF-5 transgenic plants and wild-type Arabidopsis lines. The transgeniclines display a tolerant phenotype. Individual transformant lines areshown.

FIG. 6 shows the results of a drought stress test with over-expressingPpCABF-3 transgenic plants and wild-type Arabidopsis lines. Thetransgenic lines display a tolerant phenotype. Individual transformantlines are shown.

FIG. 7 shows the results of a drought stress test with over-expressingPpAPS-2 transgenic plants and wild-type Arabidopsis lines. Thetransgenic lines display a tolerant phenotype. Individual transformantlines are shown.

FIG. 8 shows the results of a drought stress test with over-expressingPpSFL-1 transgenic plants and wild-type Arabidopsis lines. Thetransgenic lines display a tolerant phenotype. Individual transformantlines are shown.

FIG. 9 shows the results of a drought stress test with over-expressingPpMYB-1 transgenic plants and wild-type Arabidopsis lines. Thetransgenic lines display a tolerant phenotype. Individual transformantlines are shown.

FIG. 10 shows the results of a freezing stress test with over-expressingPpCABF-3 transgenic plants and wild-type Arabidopsis lines. Thetransgenic lines display a tolerant phenotype. Individual transformantlines are shown.

FIG. 11 shows the results of a freezing stress test with over-expressingPpZF-2 transgenic plants and wild-type Arabidopsis lines. The transgeniclines display a tolerant phenotype. Individual transformant lines areshown.

FIG. 12 shows the results of a freezing stress test with over-expressingPpZF-3 transgenic plants and wild-type Arabidopsis lines. The transgeniclines display a tolerant phenotype. Individual transformant lines areshown.

DETAILED DESCRIPTION OF THE INVENTION

The present invention may be understood more readily by reference to thefollowing detailed description of the preferred embodiments of theinvention and the Examples included herein. However, before the presentcompounds, compositions, and methods are disclosed and described, it isto be understood that this invention is not limited to specific nucleicacids, specific polypeptides, specific cell types, specific host cells,specific conditions, or specific methods, etc., as such may, of course,vary, and the numerous modifications and variations therein will beapparent to those skilled in the art. It is also to be understood thatthe terminology used herein is for the purpose of describing specificembodiments only and is not intended to be limiting. In particular, thedesignation of the amino acid sequences as protein “Transcription FactorStress-Related Proteins” (TFSRPs), in no way limits the functionality ofthose sequences.

The present invention provides a transgenic plant cell transformed by aTFSRP coding nucleic acid, wherein expression of the nucleic acidsequence in the plant cell results in increased tolerance toenvironmental stress as compared to a wild type variety of the plantcell. The invention further provides transgenic plant parts andtransgenic plants containing the plant cells described herein. Alsoprovided is a plant seed produced by a transgenic plant transformed by aTFSRP coding nucleic acid, wherein the seed contains the TFSRP codingnucleic acid, and wherein the plant is true breeding for increasedtolerance to environmental stress as compared to a wild type variety ofthe plant. The invention further provides a seed produced by atransgenic plant expressing a TFSRP, wherein the seed contains theTFSRP, and wherein the plant is true breeding for increased tolerance toenvironmental stress as compared to a wild type variety of the plant.The invention also provides an agricultural product produced by any ofthe below-described transgenic plants, plant parts and plant seeds.

As used herein, the term “variety” refers to a group of plants within aspecies that share constant characters that separate them from thetypical form and from other possible varieties within that species.While possessing at least one distinctive trait, a variety is alsocharacterized by some variation between individuals within the variety,based primarily on the Mendelian segregation of traits among the progenyof succeeding generations. A variety is considered “true breeding” for aparticular trait if it is genetically homozygous for that trait to theextent that, when the true-breeding variety is self-pollinated, asignificant amount of independent segregation of the trait among theprogeny is not observed. In the present invention, the trait arises fromthe transgenic expression of one or more DNA sequences introduced into aplant variety.

The present invention describes for the first time that thePhyscomitrella patens TFSRPs, APS-2, ZF-2, ZF-3, ZF-4, ZF-5, MYB-1,CABF-3 and SFL-1, are useful for increasing a plant's tolerance toenvironmental stress. The PpAPS-2 protein (AP2 Similar) contains aregion of similarity with the AP2 domain present in some planttranscription factors. Apetala-2 (AP2) is a homeotic gene in Arabidopsisand mutations in this gene result in the generation of flowers withoutpetals. The AP2 domain is found in not only homeotic genes in plants,but also in proteins with diverse function.

Another group of novel predicted proteins described herein are PpZF-2,PpZF-3, PpZF-4 and PpZF-5, which show sequence similarity to theZinc-Finger class of transcription factors. Zinc-finger transcriptionfactors share in common a specific secondary structure wherein a zincmolecule is sequestered by the interaction with cysteine or histidineamino acid residues. Through these “fingers,” the proteins interact withtheir specific DNA targets and regulate transcription of the targetgenes. Zinc-finger factors are associated with a multitude of biologicalphenomena. For example, in yeast zinc fingers are related with theregulation of multiple genes, e.g. genes involved in general metabolism.In plants, a zinc-finger protein, CONSTANS, is responsible fordetermining flowering time (Putterill et al. 1995 Cell 80:847-57).Sakamoto et al. (2000 Gene 248:23-32) also report the activation of thegene expression of three zinc finger proteins in Arabidopsis duringwater-stress treatments. They did not, however, present any data linkingthis increased expression with stress tolerance. Finally, Lippuner etal. (1996 JBC 271:12859-66) have reported that a particular class ofzinc-finger proteins was able to confer salt tolerance to yeast mutants,however no data showing increased salt tolerance to whole plants waspresented.

Another novel predicted protein described herein is a PpMYB-1 proteinthat shares sequence homology with transcription factors from the MYBfamily. This group of transcription factors have the highest degree ofhomology in the “MYB domain”. In addition to being involved in pigmentformation in maize (Shinozaki et al. 2000. Curr. Op. Pl. Biol.3:217-23), it has also been proposed that a MYB-containing protein isinvolved in regulating stress-related gene expression in plants. Inparticular, a MYB-containing protein, AtMYB2 has been shown to bestress-induced (PCT Application No. WO 99/16878). However, no data hasbeen presented, demonstrating that the over-expression of AtMYB2 leadsto stress tolerance in a plant.

Yet another novel predicted protein described herein is PpCABF-3, whichis similar to the domain “B” of other CAAT-Box Binding Factors (Johnsonand McKnight, 1989. Ann. Rev. Biochem. 58:799-840). In general, CABFsare parts of multi-component transcription activation complexes and actas general transcriptional regulators and activators. The particularcombination of the different CABFs and other sub-units in the complexdetermines the target genes. PpCABF-3 seems to be important for theactivation of stress-related genes upon over-expression in Arabidopsisthaliana. PpCABF-3 is homologous to other two CAAT-Box Binding Factorsfrom Physcomitrella patens, namely PpCABF-1 and PpCABF-2. Based upon aphylogenic analysis, it is believed that these proteins belong to anexclusive class of CAAT-Box Binding proteins.

A final group of novel predicted proteins described herein includes thePpSFL-1 (Sigma Factor Like) protein. The SFL-1 shares a high degree ofsequence with prokaryotic and plant chloroplast sigma factors. Sigmafactors are essential for determining promoter recognition andconsequently correct transcription initiation in prokaryotes as well asin chloroplasts. Chloroplasts are a major target for engineering stresstolerance, since these organelles are heavily impaired during stressconditions. Attenuation of chloroplast damage can lead to increasedstress tolerance in plants.

Accordingly, the present invention provides isolated TFSRPs selectedfrom the group consisting of APS-2, ZF-2, ZF-3, ZF-4, ZF-5, MYB-1,CABF-3, SFL-1 and homologs thereof. In preferred embodiments, the TFSRPis selected from 1) an AP2 Similar-2 (APS-2) protein as defined in SEQID NO:17; 2) a Zinc-Finger Factor-2 (ZF-2) protein as defined in SEQ IDNO:18; 3) a Zinc-Finger Factor-3 (ZF-3) protein as defined in SEQ IDNO:19; 4) a Zinc-Finger Factor-4 (ZF-4) protein as defined in SEQ IDNO:20; 5) a Zinc-Finger Factor-5 (ZF-5) protein as defined in SEQ IDNO:21; 6) an MYB-1 (MYB-1) protein as defined in SEQ ID NO:22; 7) aCAAT-Box Binding Factor-3 (CABF-3) protein as defined in SEQ ID NO:23;8) a Sigma Factor Like (SFL-1) protein as defined in SEQ ID NO:24, andhomologs and orthologs thereof. Homologs and orthologs of the amino acidsequences are defined below.

The TFSRPs of the present invention are preferably produced byrecombinant DNA techniques. For example, a nucleic acid moleculeencoding the protein is cloned into an expression vector (as describedbelow), the expression vector is introduced into a host cell (asdescribed below) and the TFSRP is expressed in the host cell. The TFSRPcan then be isolated from the cells by an appropriate purificationscheme using standard protein purification techniques. Alternative torecombinant expression, a TFSRP polypeptide, or peptide can besynthesized chemically using standard peptide synthesis techniques.Moreover, native TFSRP can be isolated from cells (e.g., Physcomitrellapatens), for example using an anti-TFSRP antibody, which can be producedby standard techniques utilizing a TFSRP or fragment thereof.

The invention further provides an isolated TFSRP coding nucleic acid.The present invention includes TFSRP coding nucleic acids that encodeTFSRPs as described herein. In preferred embodiments, the TFSRP codingnucleic acid is selected from 1) an AP2 Similar-2 (APS-2) nucleic acidas defined in SEQ ID NO:9; 2) a Zinc-Finger Factor-2 (ZF-2) nucleic acidas defined in SEQ ID NO:10; 3) a Zinc-Finger Factor-3 (ZF-3) nucleicacid as defined in SEQ ID NO:11; 4) a Zinc-Finger Factor-4 (ZF-4)nucleic acid as defined in SEQ ID NO:12; 5) a Zinc-Finger Factor-5(ZF-5) nucleic acid as defined in SEQ ID NO:13; 6) an MYB-1 nucleic acidas defined in SEQ ID NO:14; 7) a CAAT-Box Binding Factor-3 (CABF-3)nucleic acid as defined in SEQ ID NO:15; 8) a Sigma Factor Like (SFL-1)nucleic acid as defined in SEQ ID NO:16 and homologs and orthologsthereof. Homologs and orthologs of the nucleotide sequences are definedbelow. In one preferred embodiment, the nucleic acid and protein areisolated from the plant genus Physcomitrella. In another preferredembodiment, the nucleic acid and protein are from a Physcomitrellapatens (P. patens) plant.

As used herein, the term “environmental stress” refers to anysub-optimal growing condition and includes, but is not limited to,sub-optimal conditions associated with salinity, drought, temperature,metal, chemical, pathogenic and oxidative stresses, or combinationsthereof. In preferred embodiments, the environmental stress can besalinity, drought, or temperature, or combinations thereof, and inparticular, can be high salinity, low water content or low temperature.It is also to be understood that as used in the specification and in theclaims, “a” or “an” can mean one or more, depending upon the context inwhich it is used. Thus, for example, reference to “a cell” can mean thatat least one cell can be utilized.

As also used herein, the terms “nucleic acid” and “nucleic acidmolecule” are intended to include DNA molecules (e.g., cDNA or genomicDNA) and RNA molecules (e.g., mRNA) and analogs of the DNA or RNAgenerated using nucleotide analogs. This term also encompassesuntranslated sequence located at both the 3′ and 5′ ends of the codingregion of the gene: at least about 1000 nucleotides of sequence upstreamfrom the 5′ end of the coding region and at least about 200 nucleotidesof sequence downstream from the 3′ end of the coding region of the gene.The nucleic acid molecule can be single-stranded or double-stranded, butpreferably is double-stranded DNA.

An “isolated” nucleic acid molecule is one that is substantiallyseparated from other nucleic acid molecules which are present in thenatural source of the nucleic acid. Preferably, an “isolated” nucleicacid is free of some of the sequences which naturally flank the nucleicacid (i.e., sequences located at the 5′ and 3′ ends of the nucleic acid)in the genomic DNA of the organism from which the nucleic acid isderived. For example, in various embodiments, the isolated TFSRP nucleicacid molecule can contain less than about 5 kb, 4 kb, 3 kb, 2 kb, 1 kb,0.5 kb or 0.1 kb of nucleotide sequences which naturally flank thenucleic acid molecule in genomic DNA of the cell from which the nucleicacid is derived (e.g., a Physcomitrella patens cell). Moreover, an“isolated” nucleic acid molecule, such as a cDNA molecule, can be freefrom some of the other cellular material with which it is naturallyassociated, or culture medium when produced by recombinant techniques,or chemical precursors or other chemicals when chemically synthesized.

A nucleic acid molecule of the present invention, e.g., a nucleic acidmolecule having a nucleotide sequence of SEQ ID NO:9, SEQ ID NO:10, SEQID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15, SEQ IDNO:16, or a portion thereof, can be isolated using standard molecularbiology techniques and the sequence information provided herein. Forexample, a P. patens TFSRP cDNA can be isolated from a P. patens libraryusing all or portion of one of the sequences of SEQ ID NO:1, SEQ IDNO:2, SEQ ID NO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7 orSEQ ID NO:8. Moreover, a nucleic acid molecule encompassing all or aportion of one of the sequences of SEQ ID NO:1, SEQ ID NO:2, SEQ IDNO:3, SEQ ID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7 and SEQ ID NO:8can be isolated by the polymerase chain reaction using oligonucleotideprimers designed based upon this sequence. For example, mRNA can beisolated from plant cells (e.g., by the guanidinium-thiocyanateextraction procedure of Chirgwin et al., 1979 Biochemistry 18:5294-5299)and cDNA can be prepared using reverse transcriptase (e.g., Moloney MLVreverse transcriptase, available from Gibco/BRL, Bethesda, Md.; or AMVreverse transcriptase, available from Seikagaku America, Inc., St.Petersburg, Fla.). Synthetic oligonucleotide primers for polymerasechain reaction amplification can be designed based upon one of thenucleotide sequences shown in SEQ ID NO:1, SEQ ID NO:2, SEQ ID NO:3, SEQID NO:4, SEQ ID NO:5, SEQ ID NO:6, SEQ ID NO:7 and SEQ ID NO:8. Anucleic acid molecule of the invention can be amplified using cDNA or,alternatively, genomic DNA, as a template and appropriateoligonucleotide primers according to standard PCR amplificationtechniques. The nucleic acid molecule so amplified can be cloned into anappropriate vector and characterized by DNA sequence analysis.Furthermore, oligonucleotides corresponding to a TFSRP nucleotidesequence can be prepared by standard synthetic techniques, e.g., usingan automated DNA synthesizer.

In a preferred embodiment, an isolated nucleic acid molecule of theinvention comprises one of the nucleotide sequences shown in SEQ IDNO:9, SEQ ID NO:10, SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ IDNO:14, SEQ ID NO:15 and SEQ ID NO:16. These cDNAs comprise sequencesencoding the TFSRPs (i.e., the “coding region”, indicated in Table 1),as well as 5′ untranslated sequences and 3′ untranslated sequences. Itis to be understood that SEQ ID NO:9, SEQ ID NO:10, SEQ ID NO:11, SEQ IDNO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 and SEQ ID NO:16comprise both coding regions and 5′ and 3′ untranslated regions.Alternatively, the nucleic acid molecules of the present invention cancomprise only the coding region of any of the sequences in SEQ ID NO:9,SEQ ID NO:10, SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14,SEQ ID NO:15 or SEQ ID NO:16 or can contain whole genomic fragmentsisolated from genomic DNA. A coding region of these sequences isindicated as “ORF position”. The present invention also includes TFSRPcoding nucleic acids that encode TFSRPs as described herein. Preferredis a TFSRP coding nucleic acid that encodes a TFSRP selected from thegroup consisting of, APS-2 (SEQ ID NO:17), ZF-2 (SEQ ID NO:18), ZF-3(SEQ ID NO:19), ZF-4 (SEQ ID NO:20), ZF-5 (SEQ ID NO:21), MYB-1 (SEQ IDNO:22), CABF-3 (SEQ ID NO:23) and SFL-1 (SEQ ID NO:24).

Moreover, the nucleic acid molecule of the invention can comprise only aportion of the coding region of one of the sequences in SEQ ID NO:9, SEQID NO:10, SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ IDNO:15 and SEQ ID NO:16, for example, a fragment which can be used as aprobe or primer or a fragment encoding a biologically active portion ofa TFSRP. The nucleotide sequences determined from the cloning of theTFSRP genes from P. patens allow for the generation of probes andprimers designed for use in identifying and/or cloning TFSRP homologs inother cell types and organisms, as well as TFSRP homologs from othermosses and related species.

Portions of proteins encoded by the TFSRP nucleic acid molecules of theinvention are preferably biologically active portions of one of theTFSRPs described herein. As used herein, the term “biologically activeportion of” a TFSRP is intended to include a portion, e.g., adomain/motif, of a TFSRP that participates in a stress toleranceresponse in a plant, has an activity as set forth in Table 1, orparticipates in the transcription of a protein involved in a stresstolerance response in a plant. To determine whether a TFSRP, or abiologically active portion thereof, can participate in transcription ofa protein involved in a stress tolerance response in a plant, or whetherrepression of a TFSRP results in increased stress tolerance in a plant,a stress analysis of a plant comprising the TFSRP may be performed. Suchanalysis methods are well known to those skilled in the art, as detailedin Example 7. More specifically, nucleic acid fragments encodingbiologically active portions of a TFSRP can be prepared by isolating aportion of one of the sequences in SEQ ID NO:17, SEQ ID NO:18, SEQ IDNO:19, SEQ ID NO:20, SEQ ID NO:21, SEQ ID NO:22, SEQ ID NO:23 and SEQ IDNO:24, expressing the encoded portion of the TFSRP or peptide (e.g., byrecombinant expression in vitro) and assessing the activity of theencoded portion of the TFSRP or peptide.

Biologically active portions of a TFSRP are encompassed by the presentinvention and include peptides comprising amino acid sequences derivedfrom the amino acid sequence of a TFSRP, e.g., an amino acid sequence ofSEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21,SEQ ID NO:22, SEQ ID NO:23 or SEQ ID NO:24, or the amino acid sequenceof a protein homologous to a TFSRP, which include fewer amino acids thana full length TFSRP or the full length protein which is homologous to aTFSRP, and exhibit at least one activity of a TFSRP. Typically,biologically active portions (e.g., peptides which are, for example, 5,10, 15, 20, 30, 35, 36, 37, 38, 39, 40, 50, 100 or more amino acids inlength) comprise a domain or motif with at least one activity of aTFSRP. Moreover, other biologically active portions in which otherregions of the protein are deleted, can be prepared by recombinanttechniques and evaluated for one or more of the activities describedherein. Preferably, the biologically active portions of a TFSRP includeone or more selected domains/motifs or portions thereof havingbiological activity.

The invention also provides TFSRP chimeric or fusion proteins. As usedherein, a TFSRP “chimeric protein” or “fusion protein” comprises a TFSRPpolypeptide operatively linked to a non-TFSRP polypeptide. A TFSRPpolypeptide refers to a polypeptide having an amino acid sequencecorresponding to a TFSRP, whereas a non-TFSRP polypeptide refers to apolypeptide having an amino acid sequence corresponding to a proteinwhich is not substantially homologous to the TFSRP, e.g., a protein thatis different from the TFSRP and is derived from the same or a differentorganism. Within the fusion protein, the term “operatively linked” isintended to indicate that the TFSRP polypeptide and the non-TFSRPpolypeptide are fused to each other so that both sequences fulfill theproposed function attributed to the sequence used. The non-TFSRPpolypeptide can be fused to the N-terminus or C-terminus of the TFSRPpolypeptide. For example, in one embodiment, the fusion protein is aGST-TFSRP fusion protein in which the TFSRP sequences are fused to theC-terminus of the GST sequences. Such fusion proteins can facilitate thepurification of recombinant TFSRPs. In another embodiment, the fusionprotein is a TFSRP containing a heterologous signal sequence at itsN-tenninus. In certain host cells (e.g., mammalian host cells),expression and/or secretion of a TFSRP can be increased through use of aheterologous signal sequence.

Preferably, a TFSRP chimeric or fusion protein of the invention isproduced by standard recombinant DNA techniques. For example, DNAfragments coding for the different polypeptide sequences are ligatedtogether in-frame in accordance with conventional techniques, forexample by employing blunt-ended or stagger-ended termini for ligation,restriction enzyme digestion to provide for appropriate termini,filling-in of cohesive ends as appropriate, alkaline phosphatasetreatment to avoid undesirable joining and enzymatic ligation. Inanother embodiment, the fusion gene can be synthesized by conventionaltechniques including automated DNA synthesizers. Alternatively, PCRamplification of gene fragments can be carried out using anchor primerswhich give rise to complementary overhangs between two consecutive genefragments which can subsequently be annealed and re-amplified togenerate a chimeric gene sequence (see, for example, Current Protocolsin Molecular Biology, Eds. Ausubel et al. John Wiley & Sons: 1992).Moreover, many expression vectors are commercially available thatalready encode a fusion moiety (e.g., a GST polypeptide). A TFSRPencoding nucleic acid can be cloned into such an expression vector suchthat the fusion moiety is linked in-frame to the TFSRP.

In addition to fragments and fusion proteins of the TFSRPs describedherein, the present invention includes homologs and analogs of naturallyoccurring TFSRPs and TFSRP encoding nucleic acids in a plant. “Homologs”are defined herein as two nucleic acids or proteins that have similar,or “homologous”, nucleotide or amino acid sequences, respectively.Homologs include allelic variants, orthologs, paralogs, agonists andantagonists of TFSRPs as defined hereafter. The term “homolog” furtherencompasses nucleic acid molecules that differ from one of thenucleotide sequences shown in SEQ ID NO:9, SEQ ID NO:10, SEQ ID NO:11,SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 and SEQ ID NO:16(and portions thereof) due to degeneracy of the genetic code and thusencode the same TFSRP as that encoded by the nucleotide sequences shownin SEQ ID NO:9, SEQ ID NO:10, SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13,SEQ ID NO:14, SEQ ID NO:15 or SEQ ID NO:16. As used herein a “naturallyoccurring” TFSRP refers to a TFSRP amino acid sequence that occurs innature. Preferably, a naturally occurring TFSRP comprises an amino acidsequence selected from the group consisting of SEQ ID NO:17, SEQ IDNO:18, SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21, SEQ ID NO:22, SEQ IDNO:23 and SEQ ID NO:24.

An agonist of the TFSRP can retain substantially the same, or a subset,of the biological activities of the TFSRP. An antagonist of the TFSRPcan inhibit one or more of the activities of the naturally occurringform of the TFSRP. For example, the TFSRP antagonist can competitivelybind to a downstream or upstream member of the cell membrane componentmetabolic cascade that includes the TFSRP, or bind to a TFSRP thatmediates transport of compounds across such membranes, therebypreventing translocation from taking place.

Nucleic acid molecules corresponding to natural allelic variants andanalogs, orthologs and paralogs of a TFSRP cDNA can be isolated based ontheir identity to the Physcomitrella patens TFSRP nucleic acidsdescribed herein using TFSRP cDNAs, or a portion thereof, as ahybridization probe according to standard hybridization techniques understringent hybridization conditions. In an alternative embodiment,homologs of the TFSRP can be identified by screening combinatoriallibraries of mutants, e.g., truncation mutants, of the TFSRP for TFSRPagonist or antagonist activity. In one embodiment, a variegated libraryof TFSRP variants is generated by combinatorial mutagenesis at thenucleic acid level and is encoded by a variegated gene library. Avariegated library of TFSRP variants can be produced by, for example,enzymatically ligating a mixture of synthetic oligonucleotides into genesequences such that a degenerate set of potential TFSRP sequences isexpressible as individual polypeptides, or alternatively, as a set oflarger fusion proteins (e.g., for phage display) containing the set ofTFSRP sequences therein. There are a variety of methods that can be usedto produce libraries of potential TFSRP homologs from a degenerateoligonucleotide sequence. Chemical synthesis of a degenerate genesequence can be performed in an automatic DNA synthesizer, and thesynthetic gene is then ligated into an appropriate expression vector.Use of a degenerate set of genes allows for the provision, in onemixture, of all of the sequences encoding the desired set of potentialTFSRP sequences. Methods for synthesizing degenerate oligonucleotidesare known in the art (see, e.g., Narang, S. A., 1983 Tetrahedron 39:3;Itakura et al., 1984 Annu. Rev. Biochem. 53:323; Itakura et al., 1984Science 198:1056; Ike et al., 1983 Nucleic Acid Res. 11:477).

In addition, libraries of fragments of the TFSRP coding regions can beused to generate a variegated population of TFSRP fragments forscreening and subsequent selection of homologs of a TFSRP. In oneembodiment, a library of coding sequence fragments can be generated bytreating a double stranded PCR fragment of a TFSRP coding sequence witha nuclease under conditions wherein nicking occurs only about once permolecule, denaturing the double stranded DNA, renaturing the DNA to formdouble stranded DNA, which can include sense/antisense pairs fromdifferent nicked products, removing single stranded portions fromreformed duplexes by treatment with S1 nuclease, and ligating theresulting fragment library into an expression vector. By this method, anexpression library can be derived which encodes N-terminal, C-terminaland internal fragments of various sizes of the TFSRP.

Several techniques are known in the art for screening gene products ofcombinatorial libraries made by point mutations or truncation, and forscreening cDNA libraries for gene products having a selected property.Such techniques are adaptable for rapid screening of the gene librariesgenerated by the combinatorial mutagenesis of TFSRP homologs. The mostwidely used techniques, which are amenable to high through-put analysis,for screening large gene libraries typically include cloning the genelibrary into replicable expression vectors, transforming appropriatecells with the resulting library of vectors, and expressing thecombinatorial genes under conditions in which detection of a desiredactivity facilitates isolation of the vector encoding the gene whoseproduct was detected. Recursive ensemble mutagenesis (REM), a newtechnique that enhances the frequency of functional mutants in thelibraries, can be used in combination with the screening assays toidentify TFSRP homologs (Arkin and Yourvan, 1992 PNAS 89:7811-7815;Delgrave et al., 1993 Protein Engineering 6(3):327-331). In anotherembodiment, cell based assays can be exploited to analyze a variegatedTFSRP library, using methods well known in the art. The presentinvention further provides a method of identifying a novel TFSRP,comprising (a) raising a specific antibody response to a TFSRP, or afragment thereof, as described above; (b) screening putative TFSRPmaterial with the antibody, wherein specific binding of the antibody tothe material indicates the presence of a potentially novel TFSRP; and(c) analyzing the bound material in comparison to known TFSRP, todetermine its novelty.

To determine the percent homology of two amino acid sequences (e.g., oneof the sequences of SEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ IDNO:20, SEQ ID NO:21, SEQ ID NO:22, SEQ ID NO:23 and SEQ ID NO:24 and amutant form thereof), the sequences are aligned for optimal comparisonpurposes (e.g., gaps can be introduced in the sequence of one protein ornucleic acid for optimal alignment with the other protein or nucleicacid). The amino acid residues at corresponding amino acid positions arethen compared. When a position in one sequence (e.g., one of thesequences of SEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ ID NO:20, SEQID NO:21, SEQ ID NO:22, SEQ ID NO:23 and SEQ ID NO:24) is occupied bythe same amino acid residue at the corresponding position in the othersequence (e.g., a mutant form of the sequence selected from thepolypeptide of SEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ ID NO:20,SEQ ID NO:21, SEQ ID NO:22, SEQ ID NO:23 and SEQ ID NO:24), then themolecules are homologous at that position (i.e., as used herein aminoacid or nucleic acid “homology” is equivalent to amino acid or nucleicacid “identity”). The same type of comparison can be made between twonucleic acid sequences.

The percent homology between the two sequences is a function of thenumber of identical positions shared by the sequences (i.e., %homology=numbers of identical positions/total numbers of positions×100).Preferably, the amino acid sequences included in the present inventionare at least about 50-60%, preferably at least about 60-70%, and morepreferably at least about 70-80%, 80-90%, 90-95%, and most preferably atleast about 96%, 97%, 98%, 99% or more homologous to an entire aminoacid sequence shown in SEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ IDNO:20, SEQ ID NO:21, SEQ ID NO:22, SEQ ID NO:23 or SEQ ID NO:24. In yetanother embodiment, at least about 50-60%, preferably at least about60-70%, and more preferably at least about 70-80%, 80-90%, 90-95%, andmost preferably at least about 96%, 97%, 98%, 99% or more homologous toan entire amino acid sequence encoded by a nucleic acid sequence shownin SEQ ID NO:9, SEQ ID NO:10, SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13,SEQ ID NO:14, SEQ ID NO:15 or SEQ ID NO:16. In other embodiments, thepreferable length of sequence comparison for proteins is at least 15amino acid residues, more preferably at least 25 amino acid residues,and most preferably at least 35 amino acid residues.

In another preferred embodiment, an isolated nucleic acid molecule ofthe invention comprises a nucleotide sequence which is at least about50-60%, preferably at least about 60-70%, more preferably at least about70-80%, 80-90%, or 90-95%, and even more preferably at least about 95%,96%, 97%, 98%, 99% or more homologous to a nucleotide sequence shown inSEQ ID NO:9, SEQ ID NO:10, SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQID NO:14, SEQ ID NO:15 or SEQ ID NO:16, or a portion thereof. Thepreferable length of sequence comparison for nucleic acids is at least75 nucleotides, more preferably at least 100 nucleotides and mostpreferably the entire coding region.

It is also preferable that the homologous nucleic acid molecule of theinvention encodes a protein or portion thereof which includes an aminoacid sequence which is sufficiently homologous to an amino acid sequenceof SEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21,SEQ ID NO:22, SEQ ID NO:23 or SEQ ID NO:24 such that the protein orportion thereof maintains the same or a similar function as the aminoacid sequence to which it is compared. Functions of the TFSRP amino acidsequences of the present invention include the ability to participate ina stress tolerance response in a plant, or more particularly, toparticipate in the transcription of a protein involved in a stresstolerance response in a Physcomitrella patens plant. Examples of suchactivities are described in Table 1.

In addition to the above described methods, a determination of thepercent homology between two sequences can be accomplished using amathematical algorithm. A preferred, non-limiting example of amathematical algorithm utilized for the comparison of two sequences isthe algorithm of Karlin and Altschul (1990 Proc. Natl. Acad. Sci. USA90:5873-5877). Such an algorithm is incorporated into the NBLAST andXBLAST programs of Altschul, et al. (1990 J. Mol. Biol. 215:403-410).

BLAST nucleic acid searches can be performed with the NBLAST program,score=100, wordlength=12 to obtain nucleic acid sequences homologous tothe TFSRP nucleic acid molecules of the invention. Additionally, BLASTprotein searches can be performed with the XBLAST program, score=50,wordlength=3 to obtain amino acid sequences homologous to TFSRPs of thepresent invention. To obtain gapped alignments for comparison purposes,Gapped BLAST can be utilized as described in Altschul et al. (1997Nucleic Acids Res. 25:3389-3402). When utilizing BLAST and Gapped BLASTprograms, the default parameters of the respective programs (e.g.,XBLAST and NBLAST) can be used. Another preferred non-limiting exampleof a mathematical algorithm utilized for the comparison of sequences isthe algorithm of Myers and Miller (CABIOS 1989). Such an algorithm isincorporated into the ALIGN program (version 2.0) that is part of theGCG sequence alignment software package. When utilizing the ALIGNprogram for comparing amino acid sequences, a PAM120 weight residuetable, a gap length penalty of 12 and a gap penalty of 4 can be used toobtain amino acid sequences homologous to the TFSRPs of the presentinvention. To obtain gapped alignments for comparison purposes, GappedBLAST can be utilized as described in Altschul et al. (1997 NucleicAcids Res. 25:3389-3402). When utilizing BLAST and Gapped BLASTprograms, the default parameters of the respective programs (e.g.,XBLAST and NBLAST) can be used. Another preferred non-limiting exampleof a mathematical algorithm utilized for the comparison of sequences isthe algorithm of Myers and Miller (CABIOS 1989). Such an algorithm isincorporated into the ALIGN program (version 2.0) that is part of theGCG sequence alignment software package. When utilizing the ALIGNprogram for comparing amino acid sequences, a PAM120 weight residuetable, a gap length penalty of 12 and a gap penalty of 4 can be used.

Finally, homology between nucleic acid sequences can also be determinedusing hybridization techniques known to those of skill in the art.Accordingly, an isolated nucleic acid molecule of the inventioncomprises a nucleotide sequence which hybridizes, e.g., under stringentconditions, to one of the nucleotide sequences shown in SEQ ID NO:9, SEQID NO:10, SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ IDNO:15 and SEQ ID NO:16, or a portion thereof. More particularly, anisolated nucleic acid molecule of the invention is at least 15nucleotides in length and hybridizes under stringent conditions to thenucleic acid molecule comprising a nucleotide sequence of SEQ ID NO:9,SEQ ID NO:10, SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14,SEQ ID NO:15 or SEQ ID NO:16. In other embodiments, the nucleic acid isat least 30, 50, 100, 250 or more nucleotides in length.

As used herein, the term “hybridizes under stringent conditions” isintended to describe conditions for hybridization and washing underwhich nucleotide sequences at least 60% homologous to each othertypically remain hybridized to each other. Preferably, the conditionsare such that sequences at least about 65%, more preferably at leastabout 70%, and even more preferably at least about 75% or morehomologous to each other typically remain hybridized to each other. Suchstringent conditions are known to those skilled in the art and can befound in Current Protocols in Molecular Biology, 6.3.1-6.3.6, John Wiley& Sons, N.Y. (1989). A preferred, non-limiting example of stringenthybridization conditions are hybridization in 6× sodium chloride/sodiumcitrate (SSC) at about 45° C., followed by one or more washes in0.2×SSC, 0.1% SDS at 50-65° C. Preferably, an isolated nucleic acidmolecule of the invention that hybridizes under stringent conditions toa sequence of SEQ ID NO:9, SEQ ID NO:10, SEQ ID NO:11, SEQ ID NO:12, SEQID NO:13, SEQ ID NO:14, SEQ ID NO:15 or SEQ ID NO:16 corresponds to anaturally occurring nucleic acid molecule. As used herein, a “naturallyoccurring” nucleic acid molecule refers to an RNA or DNA molecule havinga nucleotide sequence that occurs in nature (e.g., encodes a naturalprotein). In one embodiment, the nucleic acid encodes a naturallyoccurring Physcomitrella patens TFSRP.

Using the above-described methods, and others known to those of skill inthe art, one of ordinary skill in the art can isolate homologs of theTFSRPs comprising amino acid sequences shown in SEQ ID NO:17, SEQ IDNO:18, SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21, SEQ ID NO:22, SEQ IDNO:23 or SEQ ID NO:24 and the TFSRP nucleic acids comprising thenucleotide sequences shown in SEQ ID NO:9, SEQ ID NO:10, SEQ ID NO:11,SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 or SEQ ID NO:16.One subset of these homologs are allelic variants. As used herein, theterm “allelic variant” refers to a nucleotide sequence containingpolymorphisms that lead to changes in the amino acid sequences of aTFSRP and that exist within a natural population (e.g., a plant speciesor variety). Such natural allelic variations can typically result in1-5% variance in a TFSRP nucleic acid. Allelic variants can beidentified by sequencing the nucleic acid sequence of interest in anumber of different plants, which can be readily carried out by usinghybridization probes to identify the same TFSRP genetic locus in thoseplants. Any and all such nucleic acid variations and resulting aminoacid polymorphisms or variations in a TFSRP that are the result ofnatural allelic variation and that do not alter the functional activityof a TFSRP, are intended to be within the scope of the invention.

Moreover, nucleic acid molecules encoding TFSRPs from the same or otherspecies such as TFSRP analogs, orthologs and paralogs, are intended tobe within the scope of the present invention. As used herein, the term“analogs” refers to two nucleic acids that have the same or similarfunction, but that have evolved separately in unrelated organisms. Asused herein, the term “orthologs” refers to two nucleic acids fromdifferent species, but that have evolved from a common ancestral gene byspeciation. Normally, orthologs encode proteins having the same orsimilar functions. As also used herein, the term “paralogs” refers totwo nucleic acids that are related by duplication within a genome.Paralogs usually have different functions, but these functions may berelated (Tatusov, R. L. et al. 1997 Science 278(5338):631-637). Analogs,orthologs and paralogs of a naturally occurring TFSRP can differ fromthe naturally occurring TFSRP by post-translational modifications, byamino acid sequence differences, or by both. Post-translationalmodifications include in vivo and in vitro chemical derivatization ofpolypeptides, e.g., acetylation, carboxylation, phosphorylation, orglycosylation, and such modifications may occur during polypeptidesynthesis or processing or following treatment with isolated modifyingenzymes. In particular, orthologs of the invention will generallyexhibit at least 80-85%, more preferably 90%, and most preferably 95%,96%, 97%, 98% or even 99% identity or homology with all or part of anaturally occurring TFSRP amino acid sequence and will exhibit afunction similar to a TFSRP. Orthologs of the present invention are alsopreferably capable of participating in the stress response in plants. Inone embodiment, the TFSRP orthologs maintain the ability to participatein the metabolism of compounds necessary for the construction ofcellular membranes in Physcomitrella patens, or in the transport ofmolecules across these membranes.

In addition to naturally-occurring variants of a TFSRP sequence that mayexist in the population, the skilled artisan will further appreciatethat changes can be introduced by mutation into a nucleotide sequence,such as the sequences of SEQ ID NO:9, SEQ ID NO:10, SEQ ID NO:11, SEQ IDNO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 or SEQ ID NO:16, therebyleading to changes in the amino acid sequence of the encoded TFSRP,without altering the functional ability of the TFSRP. For example,nucleotide substitutions leading to amino acid substitutions at“non-essential” amino acid residues can be made in the proteinsincluding a sequence of SEQ ID NO:9, SEQ ID NO:10, SEQ ID NO:11, SEQ IDNO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 or SEQ ID NO:16. A“non-essential” amino acid residue is a residue that can be altered fromthe wild-type sequence of one of the TFSRPs without altering theactivity of said TFSRP, whereas an “essential” amino acid residue isrequired for TFSRP activity. Other amino acid residues, however, (e.g.,those that are not conserved or only semi-conserved in the domain havingTFSRP activity) may not be essential for activity and thus are likely tobe amenable to alteration without altering TFSRP activity.

Accordingly, another aspect of the invention pertains to nucleic acidmolecules encoding TFSRPs that contain changes in amino acid residuesthat are not essential for TFSRP activity. Such TFSRPs differ in aminoacid sequence from a sequence contained in SEQ ID NO:17, SEQ ID NO:18,SEQ ID NO:19, SEQ ID NO:20, SEQ ID NO:21, SEQ ID NO:22, SEQ ID NO:23 orSEQ ID NO:24, yet retain at least one of the TFSRP activities describedherein. In one embodiment, the isolated nucleic acid molecule comprisesa nucleotide sequence encoding a protein, wherein the protein comprisesan amino acid sequence at least about 50% homologous to an amino acidsequence of SEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ ID NO:20, SEQID NO:21, SEQ ID NO:22, SEQ ID NO:23 or SEQ ID NO:24. Preferably, theprotein encoded by the nucleic acid molecule is at least about 50-60%homologous to one of the sequences of SEQ ID NO:17, SEQ ID NO:18, SEQ IDNO:19, SEQ ID NO:20, SEQ ID NO:21, SEQ ID NO:22, SEQ ID NO:23 or SEQ IDNO:24, more preferably at least about 60-70% homologous to one of thesequences of SEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ ID NO:20, SEQID NO:21, SEQ ID NO:22, SEQ ID NO:23 or SEQ ID NO:24, even morepreferably at least about 70-80%, 80-90%, 90-95% homologous to one ofthe sequences of SEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ ID NO:20,SEQ ID NO:21, SEQ ID NO:22, SEQ ID NO:23 or SEQ ID NO:24, and mostpreferably at least about 96%, 97%, 98%, or 99% homologous to one of thesequences of SEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ ID NO:20, SEQID NO:21, SEQ ID NO:22, SEQ ID NO:23 or SEQ ID NO:24. The preferredTFSRP homologs of the present invention are preferably capable ofparticipating in the stress tolerance response in a plant, or moreparticularly, participating in the transcription of a protein involvedin a stress tolerance response in a Physcomitrella patens plant, or haveone or more activities set forth in Table 1.

An isolated nucleic acid molecule encoding a TFSRP homologous to aprotein sequence of SEQ ID NO:17, SEQ ID NO:18, SEQ ID NO:19, SEQ IDNO:20, SEQ ID NO:21, SEQ ID NO:22, SEQ ID NO:23 or SEQ ID NO:24 can becreated by introducing one or more nucleotide substitutions, additionsor deletions into a nucleotide sequence of SEQ ID NO:9, SEQ ID NO:10,SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 orSEQ ID NO:16 such that one or more amino acid substitutions, additionsor deletions are introduced into the encoded protein. Mutations can beintroduced into one of the sequences of SEQ ID NO:9, SEQ ID NO:10, SEQID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 and SEQID NO:16 by standard techniques, such as site-directed mutagenesis andPCR-mediated mutagenesis. Preferably, conservative amino acidsubstitutions are made at one or more predicted non-essential amino acidresidues. A “conservative amino acid substitution” is one in which theamino acid residue is replaced with an amino acid residue having asimilar side chain.

Families of amino acid residues having similar side chains have beendefined in the art. These families include amino acids with basic sidechains (e.g., lysine, arginine, histidine), acidic side chains (e.g.,aspartic acid, glutamic acid), uncharged polar side chains (e.g.,glycine, asparagine, glutamine, serine, threonine, tyrosine, cysteine),nonpolar side chains (e.g., alanine, valine, leucine, isoleucine,proline, phenylalanine, methionine, tryptophan), beta-branched sidechains (e.g., threonine, valine, isoleucine) and aromatic side chains(e.g., tyrosine, phenylalanine, tryptophan, histidine). Thus, apredicted nonessential amino acid residue in a TFSRP is preferablyreplaced with another amino acid residue from the same side chainfamily. Alternatively, in another embodiment, mutations can beintroduced randomly along all or part of a TFSRP coding sequence, suchas by saturation mutagenesis, and the resultant mutants can be screenedfor a TFSRP activity described herein to identify mutants that retainTFSRP activity. Following mutagenesis of one of the sequences of SEQ IDNO:9, SEQ ID NO:10, SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ IDNO:14, SEQ ID NO:15 and SEQ ID NO:16, the encoded protein can beexpressed recombinantly and the activity of the protein can bedetermined by analyzing the stress tolerance of a plant expressing theprotein as described in Example 7.

In addition to the nucleic acid molecules encoding the TFSRPs describedabove, another aspect of the invention pertains to isolated nucleic acidmolecules that are antisense thereto. An “antisense” nucleic acidcomprises a nucleotide sequence that is complementary to a “sense”nucleic acid encoding a protein, e.g., complementary to the codingstrand of a double-stranded cDNA molecule or complementary to an mRNAsequence. Accordingly, an antisense nucleic acid can hydrogen bond to asense nucleic acid. The antisense nucleic acid can be complementary toan entire TFSRP coding strand, or to only a portion thereof. In oneembodiment, an antisense nucleic acid molecule is antisense to a “codingregion” of the coding strand of a nucleotide sequence encoding a TFSRP.The term “coding region” refers to the region of the nucleotide sequencecomprising codons that are translated into amino acid residues (e.g.,the entire coding region of, . . . comprises nucleotides 1 to . . .). Inanother embodiment, the antisense nucleic acid molecule is antisense toa “noncoding region” of the coding strand of a nucleotide sequenceencoding a TFSRP. The term “noncoding region” refers to 5′ and 3′sequences that flank the coding region that are not translated intoamino acids (i.e., also referred to as 5′ and 3′ untranslated regions).

In a preferred embodiment, an isolated nucleic acid molecule of theinvention comprises a nucleic acid molecule which is a complement of oneof the nucleotide sequences shown in SEQ ID NO:9, SEQ ID NO:10, SEQ IDNO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 and SEQ IDNO:16, or a portion thereof. A nucleic acid molecule that iscomplementary to one of the nucleotide sequences shown in SEQ ID NO:9,SEQ ID NO:10, SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14,SEQ ID NO:15 and SEQ ID NO:16 is one which is sufficiently complementaryto one of the nucleotide sequences shown in SEQ ID NO:9, SEQ ID NO:10,SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 andSEQ ID NO:16 such that it can hybridize to one of the nucleotidesequences shown in SEQ ID NO:9, SEQ ID NO:10, SEQ ID NO:11, SEQ IDNO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 and SEQ ID NO:16,thereby forming a stable duplex.

Given the coding strand sequences encoding the TFSRPs disclosed herein(e.g., the sequences set forth in SEQ ID NO:9, SEQ ID NO:10, SEQ IDNO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 and SEQ IDNO:16), antisense nucleic acids of the invention can be designedaccording to the rules of Watson and Crick base pairing. The antisensenucleic acid molecule can be complementary to the entire coding regionof TFSRP mRNA, but more preferably is an oligonucleotide which isantisense to only a portion of the coding or noncoding region of TFSRPmRNA. For example, the antisense oligonucleotide can be complementary tothe region surrounding the translation start site of TFSRP mRNA. Anantisense oligonucleotide can be, for example, about 5, 10, 15, 20, 25,30, 35, 40, 45 or 50 nucleotides in length.

An antisense nucleic acid of the invention can be constructed usingchemical synthesis and enzymatic ligation reactions using proceduresknown in the art. For example, an antisense nucleic acid (e.g., anantisense oligonucleotide) can be chemically synthesized using naturallyoccurring nucleotides or variously modified nucleotides designed toincrease the biological stability of the molecules or to increase thephysical stability of the duplex formed between the antisense and sensenucleic acids, e.g., phosphorothioate derivatives and acridinesubstituted nucleotides can be used. Examples of modified nucleotideswhich can be used to generate the antisense nucleic acid include5-fluorouracil, 5-bromouracil, 5-chlorouracil, 5-iodouracil,hypoxanthine, xanthine, 4-acetylcytosine, 5-(carboxyhydroxylmethyl)uracil, 5-carboxymethylaminomethyl-2-thiouridine,5-carboxymethylaminomethyluracil, dihydrouracil,beta-D-galactosylqueosine, inosine, N6-isopentenyladenine,1-methylguanine, 1-methylinosine, 2,2-dimethylguanine, 2-methyladenine,2-methylguanine, 3-methylcytosine, 5-methylcytosine, N6-adenine,7-methylguanine, 5-methylaminomethyluracil,5-methoxyaminomethyl-2-thiouracil, beta-D-mannosylqueosine,5′-methoxycarboxymethyluracil, 5-methoxyuracil,2-methylthio-N6-isopentenyladenine, uracil-5-oxyacetic acid (v),wybutoxosine, pseudouracil, queosine, 2-thiocytosine,5-methyl-2-thiouracil, 2-thiouracil, 4-thiouracil, 5-methyluracil,uracil-5-oxyacetic acid methylester, uracil-5-oxyacetic acid (v),5-methyl-2-thiouracil, 3-(3-amino-3-N-2-carboxypropyl) uracil, (acp3)w,and 2,6-diaminopurine. Alternatively, the antisense nucleic acid can beproduced biologically using an expression vector into which a nucleicacid has been subcloned in an antisense orientation (i.e., RNAtranscribed from the inserted nucleic acid will be of an antisenseorientation to a target nucleic acid of interest, described further inthe following subsection).

The antisense nucleic acid molecules of the invention are typicallyadministered to a cell or generated in situ such that they hybridizewith or bind to cellular mRNA and/or genomic DNA encoding a TFSRP tothereby inhibit expression of the protein, e.g., by inhibitingtranscription and/or translation. The hybridization can be byconventional nucleotide complementarity to form a stable duplex, or, forexample, in the case of an antisense nucleic acid molecule which bindsto DNA duplexes, through specific interactions in the major groove ofthe double helix. The antisense molecule can be modified such that itspecifically binds to a receptor or an antigen expressed on a selectedcell surface, e.g., by linking the antisense nucleic acid molecule to apeptide or an antibody which binds to a cell surface receptor orantigen. The antisense nucleic acid molecule can also be delivered tocells using the vectors described herein. To achieve sufficientintracellular concentrations of the antisense molecules, vectorconstructs in which the antisense nucleic acid molecule is placed underthe control of a strong prokaryotic, viral, or eukaryotic (includingplant) promoter are preferred.

In yet another embodiment, the antisense nucleic acid molecule of theinvention is an α-anomeric nucleic acid molecule. An α-anomeric nucleicacid molecule forms specific double-stranded hybrids with complementaryRNA in which, contrary to the usual β-units, the strands run parallel toeach other (Gaultier et al., 1987 Nucleic Acids. Res. 15:6625-6641). Theantisense nucleic acid molecule can also comprise a2′-o-methylribonucleotide (Inoue et al., 1987 Nucleic Acids Res.15:6131-6148) or a chimeric RNA-DNA analogue (Inoue et al., 1987 FEBSLett. 215:327-330).

In still another embodiment, an antisense nucleic acid of the inventionis a ribozyme. Ribozymes are catalytic RNA molecules with ribonucleaseactivity which are capable of cleaving a single-stranded nucleic acid,such as an mRNA, to which they have a complementary region. Thus,ribozymes (e.g., hammerhead ribozymes described in Haselhoff andGerlach, 1988 Nature 334:585-591) can be used to catalytically cleaveTFSRP mRNA transcripts to thereby inhibit translation of TFSRP mRNA. Aribozyme having specificity for a TFSRP-encoding nucleic acid can bedesigned based upon the nucleotide sequence of a TFSRP cDNA, asdisclosed herein (i.e., SEQ ID NO:9, SEQ ID NO:10, SEQ ID NO:11, SEQ IDNO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ ID NO:15 or SEQ ID NO:16) or onthe basis of a heterologous sequence to be isolated according to methodstaught in this invention. For example, a derivative of a TetrahymenaL-19 IVS RNA can be constructed in which the nucleotide sequence of theactive site is complementary to the nucleotide sequence to be cleaved ina TFSRP-encoding mRNA. See, e.g., Cech et al. U.S. Pat. No. 4,987,071and Cech et al. U.S. Pat. No. 5,116,742. Alternatively, TFSRP mRNA canbe used to select a catalytic RNA having a specific ribonucleaseactivity from a pool of RNA molecules. See, e.g., Bartel, D. andSzostak, J. W., 1993 Science 261:1411-1418.

Alternatively, TFSRP gene expression can be inhibited by targetingnucleotide sequences complementary to the regulatory region of a TFSRPnucleotide sequence (e.g., a TFSRP promoter and/or enhancer) to formtriple helical structures that prevent transcription of a TFSRP gene intarget cells. See generally, Helene, C., 1991 Anticancer Drug Des.6(6):569-84; Helene, C. et al., 1992 Ann. N.Y. Acad. Sci. 660:27-36; andMaher, L. J., 1992 Bioassays 14(12):807-15.

In addition to the TFSRP nucleic acids and proteins described above, thepresent invention encompasses these nucleic acids and proteins attachedto a moiety. These moieties include, but are not limited to, detectionmoieties, hybridization moieties, purification moieties, deliverymoieties, reaction moieties, binding moieties, and the like. One typicalgroup of nucleic acids attached to a moiety are probes and primers. Theprobe/primer typically comprises a region of nucleotide sequence thathybridizes under stringent conditions to at least about 12, preferablyabout 25, more preferably about 40, 50 or 75 consecutive nucleotides ofa sense strand of one of the sequences set forth in SEQ ID NO:9, SEQ IDNO:10, SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ ID NO:14, SEQ IDNO:15 and SEQ ID NO:16, an anti-sense sequence of one of the sequencesset forth in SEQ ID NO:9, SEQ ID NO:10, SEQ ID NO:11, SEQ ID NO:12, SEQID NO:13, SEQ ID NO:14, SEQ ID NO:15 and SEQ ID NO:16, or naturallyoccurring mutants thereof. Primers based on a nucleotide sequence of SEQID NO:9, SEQ ID NO:10, SEQ ID NO:11, SEQ ID NO:12, SEQ ID NO:13, SEQ IDNO:14, SEQ ID NO:15 or SEQ ID NO:16 can be used in PCR reactions toclone TFSRP homologs. Probes based on the TFSRP nucleotide sequences canbe used to detect transcripts or genomic sequences encoding the same orhomologous proteins. In preferred embodiments, the probe furthercomprises a label group attached thereto, e.g. the label group can be aradioisotope, a fluorescent compound, an enzyme, or an enzyme co-factor.Such probes can be used as a part of a genomic marker test kit foridentifying cells which express a TFSRP, such as by measuring a level ofa TFSRP-encoding nucleic acid, in a sample of cells, e.g., detectingTFSRP mRNA levels or determining whether a genomic TFSRP gene has beenmutated or deleted.

In particular, a useful method to ascertain the level of transcriptionof the gene (an indicator of the amount of mRNA available fortranslation to the gene product) is to perform a Northern blot (forreference see, for example, Ausubel et al., 1988 Current Protocols inMolecular Biology, Wiley: New York). This information at least partiallydemonstrates the degree of transcription of the transformed gene. Totalcellular RNA can be prepared from cells, tissues or organs by severalmethods, all well-known in the art, such as that described in Bonnann,E. R. et al., 1992 Mol. Microbiol. 6:317-326. To assess the presence orrelative quantity of protein translated from this mRNA, standardtechniques, such as a Western blot, may be employed. These techniquesare well known to one of ordinary skill in the art. (See, for example,Ausubel et al., 1988 Current Protocols in Molecular Biology, Wiley: NewYork).

The invention further provides an isolated recombinant expression vectorcomprising a TFSRP nucleic acid as described above, wherein expressionof the vector in a host cell results in increased tolerance toenvironmental stress as compared to a wild type variety of the hostcell. As used herein, the term “vector” refers to a nucleic acidmolecule capable of transporting another nucleic acid to which it hasbeen linked. One type of vector is a “plasmid”, which refers to acircular double stranded DNA loop into which additional DNA segments canbe ligated. Another type of vector is a viral vector, wherein additionalDNA segments can be ligated into the viral genome. Certain vectors arecapable of autonomous replication in a host cell into which they areintroduced (e.g., bacterial vectors having a bacterial origin ofreplication and episomal mammalian vectors). Other vectors (e.g.,non-episomal mammalian vectors) are integrated into the genome of a hostcell upon introduction into the host cell, and thereby are replicatedalong with the host genome. Moreover, certain vectors are capable ofdirecting the expression of genes to which they are operatively linked.Such vectors are referred to herein as “expression vectors”. In general,expression vectors of utility in recombinant DNA techniques are often inthe form of plasmids. In the present specification, “plasmid” and“vector” can be used interchangeably as the plasmid is the most commonlyused form of vector. However, the invention is intended to include suchother forms of expression vectors, such as viral vectors (e.g.,replication defective retroviruses, adenoviruses and adeno-associatedviruses), which serve equivalent functions.

The recombinant expression vectors of the invention comprise a nucleicacid of the invention in a form suitable for expression of the nucleicacid in a host cell, which means that the recombinant expression vectorsinclude one or more regulatory sequences, selected on the basis of thehost cells to be used for expression, which is operatively linked to thenucleic acid sequence to be expressed. Within a recombinant expressionvector, “operably linked” is intended to mean that the nucleotidesequence of interest is linked to the regulatory sequence(s) in a mannerwhich allows for expression of the nucleotide sequence (e.g., in an invitro transcription/ translation system or in a host cell when thevector is introduced into the host cell). The term “regulatory sequence”is intended to include promoters, enhancers and other expression controlelements (e.g., polyadenylation signals). Such regulatory sequences aredescribed, for example, in Goeddel, Gene Expression Technology: Methodsin Enzymology 185, Academic Press, San Diego, Calif. (1990) or see:Gruber and Crosby, in: Methods in Plant Molecular Biology andBiotechnology, eds. Glick and Thompson, Chapter 7, 89-108, CRC Press:Boca Raton, Fla., including the references therein. Regulatory sequencesinclude those that direct constitutive expression of a nucleotidesequence in many types of host cells and those that direct expression ofthe nucleotide sequence only in certain host cells or under certainconditions. It will be appreciated by those skilled in the art that thedesign of the expression vector can depend on such factors as the choiceof the host cell to be transformed, the level of expression of proteindesired, etc. The expression vectors of the invention can be introducedinto host cells to thereby produce proteins or peptides, includingfusion proteins or peptides, encoded by nucleic acids as describedherein (e.g., TFSRPs, mutant forms of TFSRPs, fusion proteins, etc.).

The recombinant expression vectors of the invention can be designed forexpression of TFSRPs in prokaryotic or eukaryotic cells. For example,TFSRP genes can be expressed in bacterial cells such as C. glutamicum,insect cells (using baculovirus expression vectors), yeast and otherfungal cells (see Romanos, M. A. et al., 1992 Foreign gene expression inyeast: a review, Yeast 8:423-488; van den Hondel, C.A.M.J.J. et al.,1991 Heterologous gene expression in filamentous fungi, in: More GeneManipulations in Fungi, J. W. Bennet & L. L. Lasure, eds., p. 396-428:Academic Press: San Diego; and van den Hondel, C.A.M.J.J. & Punt, P. J.,1991 Gene transfer systems and vector development for filamentous fungi,in: Applied Molecular Genetics of Fungi, Peberdy, J. F. et al., eds., p.1-28, Cambridge University Press: Cambridge), algae (Falciatore et al.,1999 Marine Biotechnology 1(3):239-251), ciliates of the types:Holotrichia, Peritrichia, Spirotrichia, Suctoria, Tetrahymena,Paramecium, Colpidium, Glaucoma, Platyophrya, Potomacus,Pseudocohnilembus, Euplotes, Engehnaniella, and Stylonychia, especiallyof the genus Stylonychia lemnae with vectors following a transformationmethod as described in WO 98/01572 and multicellular plant cells (seeSchmidt, R. and Willmitzer, L., 1988 High efficiency Agrobacteriumtumefaciens-mediated transformation of Arabidopsis thaliana leaf andcotyledon explants, Plant Cell Rep. 583-586); Plant Molecular Biologyand Biotechnology, C Press, Boca Raton, Fla., chapter 6/7, S.71-119(1993); F. F. White, B. Jenes et al., Techniques for Gene Transfer, in:Transgenic Plants, Vol. 1, Engineering and Utilization, eds. Kung und R.Wu, 128-43, Academic Press: 1993; Potrykus, 1991 Annu. Rev. PlantPhysiol. Plant Molec. Biol. 42:205-225 and references cited therein) ormammalian cells. Suitable host cells are discussed further in Goeddel,Gene Expression Technology: Methods in Enzymology 185, Academic Press:San Diego, Calif. (1990). Alternatively, the recombinant expressionvector can be transcribed and translated in vitro, for example using T7promoter regulatory sequences and T7 polymerase.

Expression of proteins in prokaryotes is most often carried out withvectors containing constitutive or inducible promoters directing theexpression of either fusion or non-fusion proteins. Fusion vectors add anumber of amino acids to a protein encoded therein, usually to the aminoterminus of the recombinant protein but also to the C-terminus or fusedwithin suitable regions in the proteins. Such fusion vectors typicallyserve three purposes: 1) to increase expression of a recombinantprotein; 2) to increase the solubility of a recombinant protein; and 3)to aid in the purification of a recombinant protein by acting as aligand in affinity purification. Often, in fusion expression vectors, aproteolytic cleavage site is introduced at the junction of the fusionmoiety and the recombinant protein to enable separation of therecombinant protein from the fusion moiety subsequent to purification ofthe fusion protein. Such enzymes, and their cognate recognitionsequences, include Factor Xa, thrombin and enterokinase.

Typical fusion expression vectors include pGEX (Pharmacia Biotech Inc;Smith, D. B. and Johnson, K. S., 1988 Gene 67:31-40), pMAL (New EnglandBiolabs, Beverly, Mass.) and pRIT5 (Pharmacia, Piscataway, N.J.) whichfuse glutathione S-transferase (GST), maltose E binding protein, orprotein A, respectively, to the target recombinant protein. In oneembodiment, the coding sequence of the TFSRP is cloned into a pGEXexpression vector to create a vector encoding a fusion proteincomprising, from the N-terminus to the C-terminus, GST-thrombin cleavagesite-X protein. The fusion protein can be purified by affinitychromatography using glutathione-agarose resin. Recombinant TFSRPunfused to GST can be recovered by cleavage of the fusion protein withthrombin.

Examples of suitable inducible non-fusion E. coli expression vectorsinclude pTrc (Amann et al., 1988 Gene 69:301-315) and pET 11d (Studieret al., Gene Expression Technology: Methods in Enzymology 185, AcademicPress, San Diego, Calif. (1990) 60-89). Target gene expression from thepTrc vector relies on host RNA polymerase transcription from a hybridtrp-lac fusion promoter. Target gene expression from the pET 11d vectorrelies on transcription from a T7 gn10-lac fusion promoter mediated by aco-expressed viral RNA polymerase (T7 gnl). This viral polymerase issupplied by host strains BL21(DE3) or HMS174(DE3) from a resident λprophage harboring a T7 gn1 gene under the transcriptional control ofthe lacUV 5 promoter.

One strategy to maximize recombinant protein expression is to expressthe protein in a host bacteria with an impaired capacity toproteolytically cleave the recombinant protein (Gottesman, S., GeneExpression Technology: Methods in Enzymology 185, Academic Press, SanDiego, Calif. (1990) 119-128). Another strategy is to alter the sequenceof the nucleic acid to be inserted into an expression vector so that theindividual codons for each amino acid are those preferentially utilizedin the bacterium chosen for expression, such as C. glutamicum (Wada etal., 1992 Nucleic Acids Res. 20:2111-2118). Such alteration of nucleicacid sequences of the invention can be carried out by standard DNAsynthesis techniques.

In another embodiment, the TFSRP expression vector is a yeast expressionvector. Examples of vectors for expression in yeast S. cerevisiaeinclude pYepSec1 (Baldari, et al., 1987 Embo J. 6:229-234), pMFa (Kurjanand Herskowitz, 1982 Cell 30:933-943), pJRY88 (Schultz et al., 1987 Gene54:113-123), and pYES2 (Invitrogen Corporation, San Diego, Calif.).Vectors and methods for the construction of vectors appropriate for usein other fungi, such as the filamentous fungi, include those detailedin: van den Hondel, C.A.M.J.J. & Punt, P. J. (1991) “Gene transfersystems and vector development for filamentous fungi, in: AppliedMolecular Genetics of Fungi, J. F. Peberdy, et al., eds., p. 1-28,Cambridge University Press: Cambridge.

Alternatively, the TFSRPs of the invention can be expressed in insectcells using baculovirus expression vectors. Baculovirus vectorsavailable for expression of proteins in cultured insect cells (e.g., Sf9 cells) include the pAc series (Smith et al., 1983 Mol. Cell Biol.3:2156-2165) and the pVL series (Lucklow and Summers, 1989 Virology170:31-39).

In yet another embodiment, a TFSRP nucleic acid of the invention isexpressed in mammalian cells using a mammalian expression vector.Examples of mammalian expression vectors include pCDM8 (Seed, B., 1987Nature 329:840) and pMT2PC (Kaufman et al., 1987 EMBO J. 6:187-195).When used in mammalian cells, the expression vector's control functionsare often provided by viral regulatory elements. For example, commonlyused promoters are derived from polyoma, Adenovirus 2, cytomegalovirusand Simian Virus 40. For other suitable expression systems for bothprokaryotic and eukaryotic cells see chapters 16 and 17 of Sambrook, J.,Fritsh, E. F., and Maniatis, T. Molecular Cloning: A Laboratory Manual.2^(nd) , ed., Cold Spring Harbor Laboratory, Cold Spring HarborLaboratory Press, Cold Spring Harbor, N.Y., 1989.

In another embodiment, the recombinant mammalian expression vector iscapable of directing expression of the nucleic acid preferentially in aparticular cell type (e.g., tissue-specific regulatory elements are usedto express the nucleic acid). Tissue-specific regulatory elements areknown in the art. Non-limiting examples of suitable tissue-specificpromoters include the albumin promoter (liver-specific; Pinkert et al.,1987 Genes Dev. 1:268-277), lymphoid-specific promoters (Calame andEaton, 1988 Adv. Immunol. 43:235-275), in particular promoters of T cellreceptors (Winoto and Baltimore, 1989 EMBO J. 8:729-733) andimmunoglobulins (Banerji et al., 1983 Cell 33:729-740; Queen andBaltimore, 1983 Cell 33:741-748), neuron-specific promoters (e.g., theneurofilament promoter; Byrne and Ruddle, 1989 PNAS 86:5473-5477),pancreas-specific promoters (Edlund et al., 1985 Science 230:912-916),and mammary gland-specific promoters (e.g., milk whey promoter; U.S.Pat. No. 4,873,316 and European Application Publication No. 264,166).Developmentally-regulated promoters are also encompassed, for example,the murine hox promoters (Kessel and Gruss, 1990 Science 249:374-379)and the fetoprotein promoter (Campes and Tilghman, 1989 Genes Dev.3:537-546).

In another embodiment, the TFSRPs of the invention may be expressed inunicellular plant cells (such as algae) (see Falciatore et al., 1999Marine Biotechnology 1(3):239-251 and references therein) and plantcells from higher plants (e.g., the spermatophytes, such as cropplants). Examples of plant expression vectors include those detailed in:Becker, D., Kemper, E., Schell, J. and Masterson, R., 1992 New plantbinary vectors with selectable markers located proximal to the leftborder, Plant Mol. Biol. 20: 1195-1197; and Bevan, M. W., 1984 BinaryAgrobacterium vectors for plant transformation, Nucl. Acid. Res.12:8711-8721; Vectors for Gene Transfer in Higher Plants; in: TransgenicPlants, Vol. 1, Engineering and Utilization, eds.: Kung and R. Wu,Academic Press, 1993, S. 15-38.

A plant expression cassette preferably contains regulatory sequencescapable of driving gene expression in plant cells and operably linked sothat each sequence can fulfill its function, for example, termination oftranscription by polyadenylation signals. Preferred polyadenylationsignals are those originating from Agrobacterium tumefaciens t-DNA suchas the gene 3 known as octopine synthase of the Ti-plasmid pTiACH5(Gielen et al., 1984 EMBO J. 3:835) or functional equivalents thereofbut also all other terminators functionally active in plants aresuitable.

As plant gene expression is very often not limited on transcriptionallevels, a plant expression cassette preferably contains other operablylinked sequences like translational enhancers such as theoverdrive-sequence containing the 5′-untranslated leader sequence fromtobacco mosaic virus enhancing the protein per RNA ratio (Gallie et al.,1987 Nucl. Acids Research 15:8693-8711).

Plant gene expression has to be operably linked to an appropriatepromoter conferring gene expression in a timely, cell or tissue specificmanner. Preferred are promoters driving constitutive expression (Benfeyet al., 1989 EMBO J. 8:2195-2202) like those derived from plant viruseslike the 35S CAMV (Franck et al., 1980 Cell 21:285-294), the 19S CaMV(see also U.S. Pat. No. 5,352,605 and PCT Application No. WO 8402913) orplant promoters like those from Rubisco small subunit described in U.S.Pat. No. 4,962,028.

Other preferred sequences for use in plant gene expression cassettes aretargeting-sequences necessary to direct the gene product in itsappropriate cell compartment (for review see Kernode, 1996 Crit. Rev.Plant Sci. 15(4):285-423 and references cited therein) such as thevacuole, the nucleus, all types of plastids like amyloplasts,chloroplasts, chromoplasts, the extracellular space, mitochondria, theendoplasmic reticulum, oil bodies, peroxisomes and other compartments ofplant cells.

Plant gene expression can also be facilitated via an inducible promoter(for review see Gatz, 1997 Annu. Rev. Plant Physiol. Plant Mol. Biol.48:89-108). Chemically inducible promoters are especially suitable ifgene expression is wanted to occur in a time specific manner. Examplesof such promoters are a salicylic acid inducible promoter (PCTApplication No. WO 95/19443), a tetracycline inducible promoter (Gatz etal., 1992 Plant J. 2:397-404) and an ethanol inducible promoter (PCTApplication No. WO 93/21334).

Also, suitable promoters responding to biotic or abiotic stressconditions are those such as the pathogen inducible PRP1-gene promoter(Ward et al., 1993 Plant. Mol. Biol. 22:361-366), the heat induciblehsp80-promoter from tomato (U.S. Pat. No. 5,187,267), cold induciblealpha-amylase promoter from potato (PCT Application No. WO 96/12814) orthe wound-inducible pinII-promoter (European Patent No. 375091). Forother examples of drought, cold, and salt-inducible promoters, such asthe RD29A promoter, see Yamaguchi-Shinozalei et al. (1993 Mol. Gen.Genet. 236:331-340).

Especially preferred are those promoters that confer gene expression inspecific tissues and organs, such as guard cells and the root haircells. Suitable promoters include the napin-gene promoter from rapeseed(U.S. Pat. No. 5,608,152), the USP-promoter from Vicia faba (Baeumleinet al., 1991 Mol Gen Genet. 225(3):459-67), the oleosin-promoter fromArabidopsis (PCT Application No. WO 98/45461), the phaseolin-promoterfrom Phaseolus vulgaris (U.S. Pat. No. 5,504,200), the Bce4-promoterfrom Brassica (PCT Application No. WO 91/13980) or the legumin B4promoter (LeB4; Baeumlein et al., 1992 Plant Journal, 2(2):233-9) aswell as promoters conferring seed specific expression in monocot plantslike maize, barley, wheat, rye, rice, etc. Suitable promoters to noteare the lpt2 or lpt1-gene promoter from barley (PCT Application No. WO95/15389 and PCT Application No. WO 95/23230) or those described in PCTApplication No. WO 99/16890 promoters from the barley hordein-gene, riceglutelin gene, rice oryzin gene, rice prolamin gene, wheat gliadin gene,wheat glutelin gene, maize zein gene, oat glutelin gene, Sorghumkasirin-gene and rye secalin gene).

Also especially suited are promoters that confer plastid-specific geneexpression since plastids are the compartment where lipid biosynthesisoccurs. Suitable promoters are the viral RNA-polymerase promoterdescribed in PCT Application No. WO 95/16783 and PCT Application No. WO97/06250 and the clpP-promoter from Arabidopsis described in PCTApplication No. WO 99/46394.

The invention further provides a recombinant expression vectorcomprising a TFSRP DNA molecule of the invention cloned into theexpression vector in an antisense orientation. That is, the DNA moleculeis operatively linked to a regulatory sequence in a manner that allowsfor expression (by transcription of the DNA molecule) of an RNA moleculethat is antisense to a TFSRP mRNA. Regulatory sequences operativelylinked to a nucleic acid molecule cloned in the antisense orientationcan be chosen which direct the continuous expression of the antisenseRNA molecule in a variety of cell types. For instance, viral promotersand/or enhancers, or regulatory sequences can be chosen which directconstitutive, tissue specific or cell type specific expression ofantisense RNA. The antisense expression vector can be in the form of arecombinant plasmid, phagemid or attenuated virus wherein antisensenucleic acids are produced under the control of a high efficiencyregulatory region. The activity of the regulatory region can bedetermined by the cell type into which the vector is introduced. For adiscussion of the regulation of gene expression using antisense genessee Weintraub, H. et al., Antisense RNA as a molecular tool for geneticanalysis, Reviews—Trends in Genetics, Vol. 1(1) 1986 and Mol et al.,1990 FEBS Letters 268:427-430.

Another aspect of the invention pertains to host cells into which arecombinant expression vector of the invention has been introduced. Theterms “host cell” and “recombinant host cell” are used interchangeablyherein. It is understood that such terms refer not only to theparticular subject cell but they also apply to the progeny or potentialprogeny of such a cell. Because certain modifications may occur insucceeding generations due to either mutation or environmentalinfluences, such progeny may not, in fact, be identical to the parentcell, but are still included within the scope of the term as usedherein.

A host cell can be any prokaryotic or eukaryotic cell. For example, aTFSRP can be expressed in bacterial cells such as C. glutamicum, insectcells, fungal cells or mammalian cells (such as Chinese hamster ovarycells (CHO) or COS cells), algae, ciliates, plant cells, fungi or othermicroorganisms like C. glutamicum. Other suitable host cells are knownto those skilled in the art.

Vector DNA can be introduced into prokaryotic or eukaryotic cells viaconventional transformation or transfection techniques. As used herein,the terms “transformation”, “transfection”, “conjugation” and“transduction” are intended to refer to a variety of art-recognizedtechniques for introducing foreign nucleic acid (e.g., DNA) into a hostcell, including calcium phosphate or calcium chloride co-precipitation,DEAE-dextran-mediated transfection, lipofection, natural competence,chemical-mediated transfer and electroporation. Suitable methods fortransforming or transfecting host cells including plant cells can befound in Sambrook, et al. (Molecular Cloning: A Laboratory Manual.2^(nd), ed., Cold Spring Harbor Laboratory, Cold Spring HarborLaboratory Press, Cold Spring Harbor, NY, 1989) and other laboratorymanuals such as Methods in Molecular Biology, 1995, Vol. 44,Agrobacterium protocols, ed: Gartland and Davey, Humana Press, Totowa,N.J. As biotic and abiotic stress tolerance is a general trait wished tobe inherited into a wide variety of plants like maize, wheat, rye, oat,triticale, rice, barley, soybean, peanut, cotton, rapeseed and canola,manihot, pepper, sunflower and tagetes, solanaceous plants like potato,tobacco, eggplant, and tomato, Vicia species, pea, alfalfa, bushy plants(coffee, cacao, tea), Salix species, trees (oil palm, coconut),perennial grasses and forage crops, these crop plants are also preferredtarget plants for a genetic engineering as one further embodiment of thepresent invention.

In particular, the invention provides a method of producing a transgenicplant with a TFSRP coding nucleic acid, wherein expression of thenucleic acid(s) in the plant results in increased tolerance toenvironmental stress as compared to a wild type variety of the plantcomprising: (a) transforming a plant cell with an expression vectorcomprising a TFSRP nucleic acid, and (b) generating from the plant cella transgenic plant with a increased tolerance to environmental stress ascompared to a wild type variety of the plant. The invention alsoprovides a method of increasing expression of a gene of interest withina host cell as compared to a wild type variety of the host cell, whereinthe gene of interest is transcribed in response to a TFSRP, comprising:(a) transforming the host cell with an expression vector comprising aTFSRP coding nucleic acid, and (b) expressing the TFSRP within the hostcell, thereby increasing the expression of the gene transcribed inresponse to the TFSRP, as compared to a wild type variety of the hostcell.

For such plant transformation, binary vectors such as pBinAR can be used(Höfgen and Willmitzer, 1990 Plant Science 66:221-230). Construction ofthe binary vectors can be performed by ligation of the cDNA in sense orantisense orientation into the T-DNA. 5-prime to the cDNA a plantpromoter activates transcription of the cDNA. A polyadenylation sequenceis located 3-prime to the cDNA. Tissue-specific expression can beachieved by using a tissue specific promoter. For example, seed-specificexpression can be achieved by cloning the napin or LeB4 or USP promoter5-prime to the cDNA. Also, any other seed specific promoter element canbe used. For constitutive expression within the whole plant, the CaMV35S promoter can be used. The expressed protein can be targeted to acellular compartment using a signal peptide, for example for plastids,mitochondria or endoplasmic reticulum (Kermode, 1996 Crit. Rev. PlantSci. 4 (15):285-423). The signal peptide is cloned 5-prime in frame tothe cDNA to archive subcellular localization of the fusion protein.Additionally, promoters that are responsive to abiotic stresses can beused with, such as the Arabidopsis promoter RD29A, the nucleic acidsequences disclosed herein. One skilled in the art will recognize thatthe promoter used should be operatively linked to the nucleic acid suchthat the promoter causes transcription of the nucleic acid which resultsin the synthesis of an mRNA which encodes a polypeptide. Alternatively,the RNA can be an antisense RNA for use in affecting subsequentexpression of the same or another gene or genes.

Alternate methods of transfection include the direct transfer of DNAinto developing flowers via electroporation or Agrobacterium mediatedgene transfer. Agrobacterium mediated plant transformation can beperformed using for example the GV3101(pMP90) (Koncz and Schell, 1986Mol. Gen. Genet. 204:383-396) or LBA4404 (Clontech) Agrobacteriumtumefaciens strain. Transformation can be performed by standardtransformation and regeneration techniques (Deblaere et al., 1994 Nucl.Acids. Res. 13:4777-4788; Gelvin, Stanton B. and Schilperoort, Robert A,Plant Molecular Biology Manual, 2^(nd) Ed.—Dordrecht: Kluwer AcademicPubl., 1995.—in Sect., Ringbuc Zentrale Signatur: BT11-P ISBN0-7923-2731-4; Glick, Bernard R.; Thompson, John E., Methods in PlantMolecular Biology and Biotechnology, Boca Raton: CRC Press, 1993.—360S.,ISBN 0-8493-5164-2). For example, rapeseed can be transformed viacotyledon or hypocotyl transformation (Moloney et al., 1989 Plant cellReport 8:238-242; De Block et al., 1989 Plant Physiol. 91:694-701). Useof antibiotica for Agrobacterium and plant selection depends on thebinary vector and the Agrobacterium strain used for transformation.Rapeseed selection is normally performed using kanamycin as selectableplant marker. Agrobacterium mediated gene transfer to flax can beperformed using, for example, a technique described by Mlynarova et al.,1994 Plant Cell Report 13:282-285. Additionally, transformation ofsoybean can be performed using for example a technique described inEuropean Patent No. 0424 047, U.S. Pat. No. 5,322,783, European PatentNo. 0397 687, U.S. Pat. No. 5,376,543 or U.S. Pat. No. 5,169,770.Transformation of maize can be achieved by particle bombardment,polyethylene glycol mediated DNA uptake or via the silicon carbide fibertechnique. (See, for example, Freeling and Walbot “The maize handbook”Springer Verlag: New York (1993) ISBN 3-540-97826-7). A specific exampleof maize transformation is found in U.S. Pat. No. 5,990,387 and aspecific example of wheat transformation can be found in PCT ApplicationNo. WO 93/07256.

For stable transfection of mammalian cells, it is known that, dependingupon the expression vector and transfection technique used, only a smallfraction of cells may integrate the foreign DNA into their genome. Inorder to identify and select these integrants, a gene that encodes aselectable marker (e.g., resistance to antibiotics) is generallyintroduced into the host cells along with the gene of interest.Preferred selectable markers include those which confer resistance todrugs, such as G418, hygromycin and methotrexate or in plants thatconfer resistance towards a herbicide such as glyphosate or glufosinate.Nucleic acid molecules encoding a selectable marker can be introducedinto a host cell on the same vector as that encoding a TFSRP or can beintroduced on a separate vector. Cells stably transfected with theintroduced nucleic acid molecule can be identified by, for example, drugselection (e.g., cells that have incorporated the selectable marker genewill survive, while the other cells die).

To create a homologous recombinant microorganism, a vector is preparedwhich contains at least a portion of a TFSRP gene into which a deletion,addition or substitution has been introduced to thereby alter, e.g.,functionally disrupt, the TFSRP gene. Preferably, the TFSRP gene is aPhyscomitrella patens TFSRP gene, but it can be a homolog from a relatedplant or even from a mammalian, yeast, or insect source. In a preferredembodiment, the vector is designed such that, upon homologousrecombination, the endogenous TFSRP gene is functionally disrupted(i.e., no longer encodes a functional protein; also referred to as aknock-out vector). Alternatively, the vector can be designed such that,upon homologous recombination, the endogenous TFSRP gene is mutated orotherwise altered but still encodes a functional protein (e.g., theupstream regulatory region can be altered to thereby alter theexpression of the endogenous TFSRP). To create a point mutation viahomologous recombination, DNA-RNA hybrids can be used in a techniqueknown as chimeraplasty (Cole-Strauss et al., 1999 Nucleic Acids Research27(5):1323-1330 and Kmiec, 1999 Gene therapy American Scientist.87(3):240-247). Homologous recombination procedures in Physcomitrellapatens are also well known in the art and are contemplated for useherein.

Whereas in the homologous recombination vector, the altered portion ofthe TFSRP gene is flanked at its 5′ and 3′ ends by an additional nucleicacid molecule of the TFSRP gene to allow for homologous recombination tooccur between the exogenous TFSRP gene carried by the vector and anendogenous TFSRP gene, in a microorganism or plant. The additionalflanking TFSRP nucleic acid molecule is of sufficient length forsuccessful homologous recombination with the endogenous gene. Typically,several hundreds of base pairs up to kilobases of flanking DNA (both atthe 5′ and 3′ ends) are included in the vector (see e.g., Thomas, K. R.,and Capecchi, M. R., 1987 Cell 51:503 for a description of homologousrecombination vectors or Strepp et al., 1998 PNAS, 95 (8):4368-4373 forcDNA based recombination in Physcomitrella patens). The vector isintroduced into a microorganism or plant cell (e.g., via polyethyleneglycol mediated DNA), and cells in which the introduced TFSRP gene hashomologously recombined with the endogenous TFSRP gene are selectedusing art-known techniques.

In another embodiment, recombinant microorganisms can be produced thatcontain selected systems which allow for regulated expression of theintroduced gene. For example, inclusion of a TFSRP gene on a vectorplacing it under control of the lac operon permits expression of theTFSRP gene only in the presence of IPTG. Such regulatory systems arewell known in the art.

A host cell of the invention, such as a prokaryotic or eukaryotic hostcell in culture, can be used to produce (i.e., express) a TFSRP.Accordingly, the invention further provides methods for producing TFSRPsusing the host cells of the invention. In one embodiment, the methodcomprises culturing the host cell of invention (into which a recombinantexpression vector encoding a TFSRP has been introduced, or into whichgenome has been introduced a gene encoding a wild-type or altered TFSRP)in a suitable medium until TFSRP is produced. In another embodiment, themethod further comprises isolating TFSRPs from the medium or the hostcell.

Another aspect of the invention pertains to isolated TFSRPs, andbiologically active portions thereof. An “isolated” or “purified”protein or biologically active portion thereof is free of some of thecellular material when produced by recombinant DNA techniques, orchemical precursors or other chemicals when chemically synthesized. Thelanguage “substantially free of cellular material” includes preparationsof TFSRP in which the protein is separated from some of the cellularcomponents of the cells in which it is naturally or recombinantlyproduced. In one embodiment, the language “substantially free ofcellular material” includes preparations of a TFSRP having less thanabout 30% (by dry weight) of non-TFSRP material (also referred to hereinas a “contaminating protein”), more preferably less than about 20% ofnon-TFSRP material, still more preferably less than about 10% ofnon-TFSRP material, and most preferably less than about 5% non-TFSRPmaterial.

When the TFSRP or biologically active portion thereof is recombinantlyproduced, it is also preferably substantially free of culture medium,i.e., culture medium represents less than about 20%, more preferablyless than about 10%, and most preferably less than about 5% of thevolume of the protein preparation. The language “substantially free ofchemical precursors or other chemicals” includes preparations of TFSRPin which the protein is separated from chemical precursors or otherchemicals that are involved in the synthesis of the protein. In oneembodiment, the language “substantially free of chemical precursors orother chemicals” includes preparations of a TFSRP having less than about30% (by dry weight) of chemical precursors or non-TFSRP chemicals, morepreferably less than about 20% chemical precursors or non-TFSRPchemicals, still more preferably less than about 10% chemical precursorsor non-TFSRP chemicals, and most preferably less than about 5% chemicalprecursors or non-TFSRP chemicals. In preferred embodiments, isolatedproteins, or biologically active portions thereof, lack contaminatingproteins from the same organism from which the TFSRP is derived.Typically, such proteins are produced by recombinant expression of, forexample, a Physcomitrella patens TFSRP in plants other thanPhyscomitrella patens or microorganisms such as C. glutamicum, ciliates,algae or fungi.

The nucleic acid molecules, proteins, protein homologs, fusion proteins,primers, vectors, and host cells described herein can be used in one ormore of the following methods: identification of Physcomitrella patensand related organisms; mapping of genomes of organisms related toPhyscomitrella patens; identification and localization of Physcomitrellapatens sequences of interest; evolutionary studies; determination ofTFSRP regions required for function; modulation of a TFSRP activity;modulation of the metabolism of one or more cell functions; modulationof the transmembrane transport of one or more compounds; and modulationof stress resistance.

The moss Physcomitrella patens represents one member of the mosses. Itis related to other mosses such as Ceratodon purpureus which is capableof growth in the absence of light. Mosses like Ceratodon andPhyscomitrella share a high degree of homology on the DNA sequence andpolypeptide level allowing the use of heterologous screening of DNAmolecules with probes evolving from other mosses or organisms, thusenabling the derivation of a consensus sequence suitable forheterologous screening or functional annotation and prediction of genefunctions in third species. The ability to identify such functions cantherefore have significant relevance, e.g., prediction of substratespecificity of enzymes. Further, these nucleic acid molecules may serveas reference points for the mapping of moss genomes, or of genomes ofrelated organisms.

The TFSRP nucleic acid molecules of the invention have a variety ofuses. Most importantly, the nucleic acid and amino acid sequences of thepresent invention can be used to transform plants, thereby inducingtolerance to stresses such as drought, high salinity and cold. Thepresent invention therefore provides a transgenic plant transformed by aTFSRP nucleic acid, wherein expression of the nucleic acid sequence inthe plant results in increased tolerance to environmental stress ascompared to a wild type variety of the plant. The transgenic plant canbe a monocot or a dicot. The invention further provides that thetransgenic plant can be selected from maize, wheat, rye, oat, triticale,rice, barley, soybean, peanut, cotton, rapeseed, canola, manihot,pepper, sunflower, tagetes, solanaceous plants, potato, tobacco,eggplant, tomato, Vicia species, pea, alfalfa, coffee, cacao, tea, Salixspecies, oil palm, coconut, perennial grass and forage crops, forexample.

In particular, the present invention describes using the expression ofAPS-2, ZF-2, ZF-3, ZF-4, ZF-5, MYB-1, CABF-3 and SFL-1 of Physcomitrellapatens to engineer drought-tolerant, salt-tolerant and/or cold-tolerantplants. This strategy has herein been demonstrated for Arabidopsisthaliana, Rapeseed/Canola, soybeans, corn and wheat but its applicationis not restricted to these plants. Accordingly, the invention provides atransgenic plant containing a TFSRP selected from APS-2 (SEQ ID NO:17),ZF-2 (SEQ ID NO:18), ZF-3 (SEQ ID NO:19), ZF-4 (SEQ ID NO:20), ZF-5 (SEQID NO:21), MYB-1 (SEQ ID NO:22), CABF-3 (SEQ ID NO:23) and SFL-1 (SEQ IDNO:24), wherein the environmental stress is drought, increased salt ordecreased or increased temperature. In preferred embodiments, theenvironmental stress is drought or decreased temperature

The present invention also provides methods of modifying stresstolerance of a plant comprising, modifying the expression of a TFSRP inthe plant. The invention provides that this method can be performed suchthat the stress tolerance is either increased or decreased. Inparticular, the present invention provides methods of producing atransgenic plant having an increased tolerance to environmental stressas compared to a wild type variety of the plant comprising increasingexpression of a TFSRP in a plant.

The methods of increasing expression of TFSRPs can be used wherein theplant is either transgenic or not transgenic. In cases when the plant istransgenic, the plant can be transformed with a vector containing any ofthe above described TFSRP coding nucleic acids, or the plant can betransformed with a promoter that directs expression of native TFSRP inthe plant, for example. The invention provides that such a promoter canbe tissue specific. Furthermore, such a promoter can be developmentallyregulated. Alternatively, non-transgenic plants can have native TFSRPexpression modified by inducing a native promoter.

The expression of APS-2 (SEQ ID NO:17), ZF-2 (SEQ ID NO:18), ZF-3 (SEQID NO:19), ZF-4 (SEQ ID NO:20), ZF-5 (SEQ ID NO:21), MYB-1 (SEQ IDNO:22), CABF-3 (SEQ ID NO:23) or SFL-1 (SEQ ID NO:24) in target plantscan be accomplished by, but is not limited to, one of the followingexamples: (a) constitutive promoter, (b) stress-inducible promoter, (c)chemical-induced promoter, and (d) engineered promoter over-expressionwith for example zinc-finger derived transcription factors (Greisman andPabo, 1997 Science 275:657). The later case involves identification ofthe APS-2 (SEQ ID NO:17), ZF-2 (SEQ ID NO:18), ZF-3 (SEQ ID NO:19), ZF-4(SEQ ID NO:20), ZF-5 (SEQ ID NO:21), MYB-1 (SEQ ID NO:22), CABF-3 (SEQID NO:23) or SFL-1 (SEQ ID NO:24) homologs in the target plant as wellas from its promoter. Zinc-finger-containing recombinant transcriptionfactors are engineered to specifically interact with the APS-2 (SEQ IDNO:17), ZF-2 (SEQ ID NO:18), ZF-3 (SEQ ID NO:19), ZF-4 (SEQ ID NO:20),ZF-5 (SEQ ID NO:21), MYB-1 (SEQ ID NO:22), CABF-3 (SEQ ID NO:23) orSFL-1 (SEQ ID NO:24) homolog and transcription of the corresponding geneis activated.

In addition to introducing the TFSRP nucleic acid sequences intotransgenic plants, these sequences can also be used to identify anorganism as being Physcomitrella patens or a close relative thereofAlso, they may be used to identify the presence of Physcomitrella patensor a relative thereof in a mixed population of microorganisms. Theinvention provides the nucleic acid sequences of a number ofPhyscomitrella patens genes; by probing the extracted genomic DNA of aculture of a unique or mixed population of microorganisms understringent conditions with a probe spanning a region of a Physcomitrellapatens gene which is unique to this organism, one can ascertain whetherthis organism is present.

Further, the nucleic acid and protein molecules of the invention mayserve as markers for specific regions of the genome. This has utilitynot only in the mapping of the genome, but also in functional studies ofPhyscomitrella patens proteins. For example, to identify the region ofthe genome to which a particular Physcomitrella patens DNA-bindingprotein binds, the Physcomitrella patens genome could be digested, andthe fragments incubated with the DNA-binding protein. Those fragmentsthat bind the protein may be additionally probed with the nucleic acidmolecules of the invention, preferably with readily detectable labels.Binding of such a nucleic acid molecule to the genome fragment enablesthe localization of the fragment to the genome map of Physcomitrellapatens, and, when performed multiple times with different enzymes,facilitates a rapid determination of the nucleic acid sequence to whichthe protein binds. Further, the nucleic acid molecules of the inventionmay be sufficiently homologous to the sequences of related species suchthat these nucleic acid molecules may serve as markers for theconstruction of a genomic map in related mosses.

The TFSRP nucleic acid molecules of the invention are also useful forevolutionary and protein structural studies. The metabolic and transportprocesses in which the molecules of the invention participate areutilized by a wide variety of prokaryotic and eukaryotic cells; bycomparing the sequences of the nucleic acid molecules of the presentinvention to those encoding similar enzymes from other organisms, theevolutionary relatedness of the organisms can be assessed. Similarly,such a comparison permits an assessment of which regions of the sequenceare conserved and which are not, which may aid in determining thoseregions of the protein that are essential for the functioning of theenzyme. This type of determination is of value for protein engineeringstudies and may give an indication of what the protein can tolerate interms of mutagenesis without losing function.

Manipulation of the TFSRP nucleic acid molecules of the invention mayresult in the production of TFSRPs having functional differences fromthe wild-type TFSRPs. These proteins may be improved in efficiency oractivity, may be present in greater numbers in the cell than is usual,or may be decreased in efficiency or activity.

There are a number of mechanisms by which the alteration of a TFSRP ofthe invention may directly affect stress response and/or stresstolerance. In the case of plants expressing TFSRPs, increased transportcan lead to improved salt and/or solute partitioning within the planttissue and organs. By either increasing the number or the activity oftransporter molecules which export ionic molecules from the cell, it maybe possible to affect the salt tolerance of the cell.

The effect of the genetic modification in plants, C. glutamicum, fungi,algae, or ciliates on stress tolerance can be assessed by growing themodified microorganism or plant under less than suitable conditions andthen analyzing the growth characteristics and/or metabolism of theplant. Such analysis techniques are well known to one skilled in theart, and include dry weight, wet weight, protein synthesis, carbohydratesynthesis, lipid synthesis, evapotranspiration rates, general plantand/or crop yield, flowering, reproduction, seed setting, root growth,respiration rates, photosynthesis rates, etc. (Applications of HPLC inBiochemistry in: Laboratory Techniques in Biochemistry and MolecularBiology, vol. 17; Rehm et al., 1993 Biotechnology, vol. 3, Chapter III:Product recovery and purification, page 469-714, VCH: Weinheim; Belter,P. A. et al., 1988 Bioseparations: downstream processing forbiotechnology, John Wiley and Sons; Kennedy, J. F. and Cabral, J. M. S.,1992 Recovery processes for biological materials, John Wiley and Sons;Shaeiwitz, J. A. and Henry, J. D., 1988 Biochemical separations, in:Uhnann's Encyclopedia of Industrial Chemistry, vol. B3, Chapter 11, page1-27, VCH: Weinheim; and Dechow, F. J. (1989) Separation andpurification techniques in biotechnology, Noyes Publications).

For example, yeast expression vectors comprising the nucleic acidsdisclosed herein, or fragments thereof, can be constructed andtransformed into Saccharomyces cerevisiae using standard protocols. Theresulting transgenic cells can then be assayed for fail or alteration oftheir tolerance to drought, salt, and temperature stress. Similarly,plant expression vectors comprising the nucleic acids disclosed herein,or fragments thereof, can be constructed and transformed into anappropriate plant cell such as Arabidopsis, soy, rape, maize, wheat,Medicago truncatula, etc., using standard protocols. The resultingtransgenic cells and/or plants derived there from can then be assayedfor fail or alteration of their tolerance to drought, salt, andtemperature stress.

The engineering of one or more TFSRP genes of the invention may alsoresult in TFSRPs having altered activities which indirectly impact thestress response and/or stress tolerance of algae, plants, ciliates orfungi or other microorganisms like C. glutamicum. For example, thenormal biochemical processes of metabolism result in the production of avariety of products (e.g., hydrogen peroxide and other reactive oxygenspecies) which may actively interfere with these same metabolicprocesses (for example, peroxynitrite is known to nitrate tyrosine sidechains, thereby inactivating some enzymes having tyrosine in the activesite (Groves, J. T., 1999 Curr. Opin. Chem. Biol. 3(2):226-235). Whilethese products are typically excreted, cells can be genetically alteredto transport more products than is typical for a wild-type cell. Byoptimizing the activity of one or more TFSRPs of the invention which areinvolved in the export of specific molecules, such as salt molecules, itmay be possible to improve the stress tolerance of the cell.

Additionally, the sequences disclosed herein, or fragments thereof, canbe used to generate knockout mutations in the genomes of variousorganisms, such as bacteria, mammalian cells, yeast cells, and plantcells (Girke, T., 1998 The Plant Journal 15:39-48). The resultantknockout cells can then be evaluated for their ability or capacity totolerate various stress conditions, their response to various stressconditions, and the effect on the phenotype and/or genotype of themutation. For other methods of gene inactivation see U.S. Pat. No.6,004,804 “Non-Chimeric Mutational Vectors” and Puttaraju et al., 1999Spliceosome-mediated RNA trans-splicing as a tool for gene therapyNature Biotechnology 17:246-252.

The aforementioned mutagenesis strategies for TFSRPs resulting inincreased stress resistance are not meant to be limiting; variations onthese strategies will be readily apparent to one skilled in the art.Using such strategies, and incorporating the mechanisms disclosedherein, the nucleic acid and protein molecules of the invention may beutilized to generate algae, ciliates, plants, fungi or othermicroorganisms like C. glutamicum expressing mutated TFSRP nucleic acidand protein molecules such that the stress tolerance is improved.

The present invention also provides antibodies that specifically bind toa TFSRP, or a portion thereof, as encoded by a nucleic acid describedherein. Antibodies can be made by many well-known methods (See, e.g.Harlow and Lane, “Antibodies; A Laboratory Manual” Cold Spring HarborLaboratory, Cold Spring Harbor, N.Y., (1988)). Briefly, purified antigencan be injected into an animal in an amount and in intervals sufficientto elicit an immune response. Antibodies can either be purifieddirectly, or spleen cells can be obtained from the animal. The cells canthen fused with an immortal cell line and screened for antibodysecretion. The antibodies can be used to screen nucleic acid clonelibraries for cells secreting the antigen. Those positive clones canthen be sequenced. (See, for example, Kelly et al., 1992 Bio/Technology10:163-167; Bebbington et al., 1992 Bio/Technology 10:169-175).

The phrases “selectively binds” and “specifically binds” with thepolypeptide refer to a binding reaction that is determinative of thepresence of the protein in a heterogeneous population of proteins andother biologics. Thus, under designated immunoassay conditions, thespecified antibodies bound to a particular protein do not bind in asignificant amount to other proteins present in the sample. Selectivebinding of an antibody under such conditions may require an antibodythat is selected for its specificity for a particular protein. A varietyof immunoassay formats may be used to select antibodies that selectivelybind with a particular protein. For example, solid-phase ELISAimmunoassays are routinely used to select antibodies selectivelyimmunoreactive with a protein. See Harlow and Lane “Antibodies, ALaboratory Manual” Cold Spring Harbor Publications, New York, (1988),for a description of immunoassay formats and conditions that could beused to determine selective binding.

In some instances, it is desirable to prepare monoclonal antibodies fromvarious hosts. A description of techniques for preparing such monoclonalantibodies may be found in Stites et al., editors, “Basic and ClinicalImmunology,” (Lange Medical Publications, Los Altos, Calif., FourthEdition) and references cited therein, and in Harlow and Lane(“Antibodies, A Laboratory Manual” Cold Spring Harbor Publications, NewYork, 1988).

Throughout this application, various publications are referenced. Thedisclosures of all of these publications and those references citedwithin those publications in their entireties are hereby incorporated byreference into this application in order to more fully describe thestate of the art to which this invention pertains.

It should also be understood that the foregoing relates to preferredembodiments of the present invention and that numerous changes may bemade therein without departing from the scope of the invention. Theinvention is further illustrated by the following examples, which arenot to be construed in any way as imposing limitations upon the scopethereof. On the contrary, it is to be clearly understood that resort maybe had to various other embodiments, modifications, and equivalentsthereof, which, after reading the description herein, may suggestthemselves to those skilled in the art without departing from the spiritof the present invention and/or the scope of the appended claims.

EXAMPLES Example 1 Growth of Physcomitrella patens Cultures

For this study, plants of the species Physcomitrella patens (Hedw.)B.S.G. from the collection of the genetic studies section of theUniversity of Hamburg were used. They originate from the strain 16/14collected by H. L. K. Whitehouse in Gransden Wood, Huntingdonshire(England), which was subcultured from a spore by Engel (1968, Am. J.Bot. 55, 438-446). Proliferation of the plants was carried out by meansof spores and by means of regeneration of the gametophytes. Theprotonema developed from the haploid spore as a chloroplast-richchloronema and chloroplast-low caulonema, on which buds formed afterapproximately 12 days. These grew to give gametophores bearingantheridia and archegonia. After fertilization, the diploid sporophytewith a short seta and the spore capsule resulted, in which themeiospores matured.

Culturing was carried out in a climatic chamber at an air temperature of25° C. and light intensity of 55 micromol s⁻¹m⁻² (white light; PhilipsTL 65W/25 fluorescent tube) and a light/dark change of 16/8 hours. Themoss was either modified in liquid culture using Knop medium accordingto Reski and Abel (1985, Planta 165:354-358) or cultured on Knop solidmedium using 1% oxoid agar (Unipath, Basingstoke, England). Theprotonemas used for RNA and DNA isolation were cultured in aeratedliquid cultures. The protonemas were comminuted every 9 days andtransferred to fresh culture medium.

Example 2 Total DNA Isolation from Plants

The details for the isolation of total DNA relate to the working up ofone gram fresh weight of plant material. The materials used include thefollowing buffers: CTAB buffer: 2% (w/v)N-cethyl-N,N,N-trimethylammonium bromide (CTAB); 100 mM Tris HCl pH 8.0;1.4 M NaCl; 20 mM EDTA; N-Laurylsarcosine buffer: 10% (w/v)N-laurylsarcosine; 100 mM Tris HCl pH 8.0; 20 mM EDTA.

The plant material was triturated under liquid nitrogen in a mortar togive a fine powder and transferred to 2 ml Eppendorf vessels. The frozenplant material was then covered with a layer of 1 ml of decompositionbuffer (1 ml CTAB buffer, 100 μl of N-laurylsarcosine buffer, 20 μl ofβ-mercaptoethanol and 10 μl of proteinase K solution, 10 mg/ml) andincubated at 60° C. for one hour with continuous shaking. The homogenateobtained was distributed into two Eppendorf vessels (2 ml) and extractedtwice by shaking with the same volume of chloroform/isoamyl alcohol(24:1). For phase separation, centrifugation was carried out at 8000×gand room temperature for 15 minutes in each case. The DNA was thenprecipitated at −70° C. for 30 minutes using ice-cold isopropanol. Theprecipitated DNA was sedimented at 4° C. and 10,000 g for 30 minutes andresuspended in 180 μl of TE buffer (Sambrook et al., 1989, Cold SpringHarbor Laboratory Press: ISBN 0-87969-309-6). For further purification,the DNA was treated with NaCl (1.2 M final concentration) andprecipitated again at −70° C. for 30 minutes using twice the volume ofabsolute ethanol. After a washing step with 70% ethanol, the DNA wasdried and subsequently taken up in 50 μl of H₂O + RNAse (50 mg/ml finalconcentration). The DNA was dissolved overnight at 4° C. and the RNAsedigestion was subsequently carried out at 37° C. for 1 hour. Storage ofthe DNA took place at 4° C.

Example 3 Isolation of Total RNA and Poly-(A)+ RNA and cDNA LibraryConstruction from Physcomitrella patens

For the investigation of transcripts, both total RNA and poly-(A)⁺ RNAwere isolated. The total RNA was obtained from wild-type 9 day oldprotonemata following the GTC-method (Reski et al. 1994, Mol. Gen.Genet., 244:352-359). The Poly(A)+ RNA was isolated using Dyna Beads^(R)(Dynal, Oslo, Norway) following the instructions of the manufacturersprotocol. After determination of the concentration of the RNA or of thepoly(A)+ RNA, the RNA was precipitated by addition of 1/10 volumes of 3M sodium acetate pH 4.6 and 2 volumes of ethanol and stored at −70° C.

For cDNA library construction, first strand synthesis was achieved usingMurine Leukemia Virus reverse transcriptase (Roche, Mannheim, Germany)and oligo-d(T)-primers, second strand synthesis by incubation with DNApolymerase I, Klenow enzyme and RNAseH digestion at 12° C. (2 hours),16° C. (1 hour) and 22° C. (1 hour). The reaction was stopped byincubation at 65° C. (10 minutes) and subsequently transferred to ice.Double stranded DNA molecules were blunted by T4-DNA-polymerase (Roche,Mannheim) at 37° C. (30 minutes). Nucleotides were removed byphenol/chloroform extraction and Sephadex G50 spin columns. EcoRIadapters (Pharmacia, Freiburg, Germany) were ligated to the cDNA ends byT4-DNA-ligase (Roche, 12° C., overnight) and phosphorylated byincubation with polynucleotide kinase (Roche, 37° C., 30 minutes). Thismixture was subjected to separation on a low melting agarose gel. DNAmolecules larger than 300 base pairs were eluted from the gel, phenolextracted, concentrated on Elutip-D-columns (Schleicher and Schuell,Dassel, Germany) and were ligated to vector arms and packed into lambdaZAPII phages or lambda ZAP-Express phages using the Gigapack Gold Kit(Stratagene, Amsterdam, Netherlands) using material and following theinstructions of the manufacturer.

Example 4 Sequencing and Function Annotation of Physcomitrella patensESTs

cDNA libraries as described in Example 3 were used for DNA sequencingaccording to standard methods, and in particular, by the chaintermination method using the ABI PRISM Big Dye Terminator CycleSequencing Ready Reaction Kit (Perkin-Elmer, Weiterstadt, Germany).Random Sequencing was carried out subsequent to preparative plasmidrecovery from cDNA libraries via in vivo mass excision,retransformation, and subsequent plating of DH10B on agar plates(material and protocol details from Stratagene, Amsterdam, Netherlands.)Plasmid DNA was prepared from overnight grown E. coli cultures grown inLuria-Broth medium containing ampicillin (see Sambrook et al. 1989 ColdSpring Harbor Laboratory Press: ISBN 0-87969-309-6) on a Qiagene DNApreparation robot (Qiagen, Hilden) according to the manufacturer'sprotocols. Sequencing primers with the following nucleotide sequenceswere used:

5′-CAGGAAACAGCTATGACC-3′ SEQ ID NO:25 5′-CTAAAGGGAACAAAAGCTG-3′ SEQ IDNO:26 5′-TGTAAAACGACGGCCAGT-3′ SEQ ID NO:27

Sequences were processed and annotated using the software packageEST-MAX commercially provided by Bio-Max (Munich, Germany). The programincorporates practically all bioinformatics methods important forfunctional and structural characterization of protein sequences. Forreference the website at pedant.mips.biochem.mpg.de. The most importantalgorithms incorporated in EST-MAX are: FASTA: Very sensitive sequencedatabase searches with estimates of statistical significance; Pearson W.R. (1990) Rapid and sensitive sequence comparison with FASTP and FASTA.Methods Enzymol. 183:63-98; BLAST: Very sensitive sequence databasesearches with estimates of statistical significance. Altschul S. F.,Gish W., Miller W., Myers E. W., and Lipman D. J. Basic local alignmentsearch tool. Journal of Molecular Biology 215:403-10; PREDATOR:High-accuracy secondary structure prediction from single and multiplesequences. Frishman, D. and Argos, P. (1997) 75% accuracy in proteinsecondary structure prediction. Proteins, 27:329-335; CLUSTALW: Multiplesequence alignment. Thompson, J. D., Higgins, D. G. and Gibson, T. J.(1994) CLUSTAL W: improving the sensitivity of progressive multiplesequence alignment through sequence weighting, positions-specific gappenalties and weight matrix choice. Nucleic Acids Research,22:4673-4680; TMAP: Transmembrane region prediction from multiplyaligned sequences. Persson, B. and Argos, P. (1994) Prediction oftransmembrane segments in proteins utilizing multiple sequencealignments. J. Mol. Biol. 237:182-192; ALOM2: Transmembrane regionprediction from single sequences. Klein, P., Kanehisa, M., and DeLisi,C. Prediction of protein function from sequence properties: Adiscriminate analysis of a database. Biochim. Biophys. Acta 787:221-226(1984). Version 2 by Dr. K. Nakai; PROSEARCH: Detection of PROSITEprotein sequence patterns. Kolakowski L. F. Jr., Leunissen J. A. M.,Smith J. E. (1992) ProSearch: fast searching of protein sequences withregular expression patterns related to protein structure and function.Biotechniques 13, 919-921; BLIMPS: Similarity searches against adatabase of ungapped blocks. J. C. Wallace and Henikoff S., (1992);PATMAT: A searching and extraction program for sequence, pattern andblock queries and databases, CABIOS 8:249-254. Written by Bill Alford.

Example 5 Identification of Physcomitrella patens ORFs Corresponding toAPS-2, ZF-2, ZF-3, ZF-4, ZF-5, MYB-1, CABF-3 and SFL-1

The Physcomitrella patens partial cDNAs (ESTs) shown in Table 1 belowwere identified in the Physcomitrella patens EST sequencing programusing the program EST-MAX through BLAST analysis. The SequenceIdentification Numbers corresponding to these ESTs are as follows: APS-2(SEQ ID NO:1), ZF-2 (SEQ ID NO:2), ZF-3 (SEQ ID NO:3), ZF-4 (SEQ IDNO:4), ZF-5 (SEQ ID NO:5), MYB-1 (SEQ ID NO:6), CABF-3 (SEQ ID NO:7) andSFL-1 (SEQ ID NO:8).

TABLE 1 ORF Name Functional categories Function Sequence code positionPpAPS-2 CBF/Transcription AP2 domain containing c_pp001007077f 592-92 factor protein RAP2.11 PpZF-2 Transcription factor zinc finger proteinc_pp004033187r 1688-765  PpZF-3 Transcription factor BRCA1-associatedRING c_pp004042321r  1-500 domain protein PpZF-4 Transcription factorzinc finger protein c_pp004059097r  701-1216 ZNF216 PpZF-5 Transcriptionfactor transcription factor-like c_pp004046041r  1-675 protein PpMYB-1Transcription factor transcription factor s_pp002016030r  2-505 PpCABF-3Transcription factor transcription factor, c_pp004040113r 221-535CCAAT-binding, chain A PpSFL-1 Transcription factor transcriptioninitiation s_pp001105041r 598-158 factor sigma A

TABLE 2 Degree of amino acid identity and similarity of PpCBF-3 andother homologous proteins (Pairwise comparison program was used: gappenalty: 10; gap extension penalty: 0.1; score matrix: blosum62)Swiss-Prot# O23310 P25209 Q9LFI3 O23633 Q9ZQC3 Protein name CCAAT-CCAAT- Transcription Transcription Putative binding binding factor NF-Y,factor CCAAT- transcription transcription CCAAT- binding factor factorbinding-like transcription subunit a subunit a protein factor SpeciesArabidopsis Zea mays Arabidopsis Arabidopsis Arabidopsis thaliana(Maize) thaliana thaliana thaliana (Mouse-ear (Mouse-ear (Mouse-ear(Mouse-ear cress) cress) cress) cress) Identity % 53% 49% 42% 43% 62%Similarity % 58% 58% 53% 51% 66%

TABLE 3 Degree of amino acid identity and similarity of PpZF-2 and otherhomologous proteins (Pairwise comparison program was used: gap penalty:10; gap extension penalty: 0.1; score matrix: blosum62) Swiss-Prot#O24008 Q9LUR1 Q9XF63 Q9XF64 Q9LZJ6 Protein Zinc finger Ring zinc Ring-h2zinc Ring-h2 Ring-h2 name protein finger finger protein zinc finger zincfinger protein-like (at13) protein at15 protein at15 Species ArabidopsisArabidopsis Arabidopsis Arabidopsis Arabidopsis thaliana thalianathaliana thaliana thaliana (Mouse-ear (Mouse-ear (Mouse-ear (Mouse-ear(Mouse-ear cress) cress) cress) cress) cress) Identity % 27% 26% 25% 20%19% Similarity % 35% 35% 34% 28% 28%

TABLE 4 Degree of amino acid identity and similarity of PpZF-3 and otherhomologous proteins (Pairwise comparison program was used: gap penalty:10; gap extension penalty: 0.1; score matrix: blosum62) Swiss-Prot#Q9SMX5 O04097 Q9UQR3 Q9XZQ1 Q9XZQ2 Protein name Gcn4- Brcal- CentaurinCentaurin Centaurin complementing associated beta2 beta 1a beta 1bprotein (gcp1) ring domain protein isolog Species ArabidopsisArabidopsis Homo Caenorhabditis Caenorhabditis thaliana thaliana sapienselegans elegans (Mouse-ear (Mouse-ear (Human) cress) cress) Identity %41% 37% 24% 21% 22% Similarity % 54% 49% 32% 31% 34%

TABLE 5 Degree of amino acid identity and similarity of PpZF-4 and otherhomologous proteins (Pairwise comparison program was used: gap penalty:10; gap extension penalty: 0.1; score matrix: blosum62) Swiss-Prot#Q9LXI5 O88878 O76080 Q9ZNU9 O96038 Protein name Zinc finger- Zinc fingerZinc finger Putative zinc Pem-6 like protein protein protein 216 fingerprotein znf216 Species Arabidopsis Mus Homo Arabidopsis Ciona savignyithaliana musculus sapiens thaliana (Mouse-ear (Mouse) (Human) (Mouse-earcress) cress) Identity % 39% 34% 34% 35% 32% Similarity % 53% 45% 45%50% 49%

TABLE 6 Degree of amino acid identity and similarity of PpZF-5 and otherhomologous proteins (Pairwise comparison program was used: gap penalty:10; gap extension penalty: 0.1; score matrix: blosum62) Swiss-Prot#Q9SZW1 Q9ZTR9 Q9SYQ6 Q9ZTX9 O23661 Protein name Transcription AuxinAuxin Auxin Ettin protein factor-like response response response proteinfactor 8 factor 7 factor 4 Species Arabidopsis Arabidopsis ArabidopsisArabidopsis Arabidopsis thaliana thaliana thaliana thaliana thaliana(Mouse-ear (Mouse-ear (Mouse-ear (Mouse-ear (Mouse-ear cress) cress)cress) cress) cress) Identity % 39% 23% 25% 25% 25% Similarity % 50% 32%33% 32% 35%

TABLE 7 Degree of amino acid identity and similarity of PpAPS-2 andother homologous proteins (Pairwise comparison program was used: gappenalty: 10; gap extension penalty: 0.1; score matrix: blosum62)Swiss-Prot# Q9SJR0 O22174 O04682 Q9SW63 Q9SGJ6 Protein name Putative AP2Putative AP2 Pathogenesis- Tiny-like Transcription domain domain relatedgenes protein factor dreb 1a transcription containing transcriptionalfactor protein activator pti6 Species Arabidopsis ArabidopsisLycopersicon Arabidopsis Arabidopsis thaliana thaliana esculentumthaliana thaliana (Mouse-ear (Mouse-ear (Tomato) (Mouse-ear (Mouse-earcress) cress) cress) cress) Identity % 18% 19% 15% 15% 16% Similarity %23% 29% 20% 25% 24%

TABLE 8 Degree of amino acid identity and similarity of PpSFL-1 andother homologous proteins (Pairwise comparison program was used: gappenalty: 10; gap extension penalty: 0.1; score matrix: blosum62)Swiss-Prot# Q59965 Q9L4T2 O22455 O22056 Q9MTH3 Protein RNA RNA RNA RNARNA name polymerase polymerase polymerase polymerase polymerase sigmafactor sigma factor sigma factor sigma factor sigma factor SpeciesSynechococcus Nostoc Arabidopsis Arabidopsis Sinapis alba sp.punctiforme thaliana thaliana (White (Mouse-ear (Mouse-ear mustard)cress) cress) Identity % 49% 49% 32% 42% 30% Similarity % 62% 61% 44%59% 42%

TABLE 9 Degree of amino acid identity and similarity of PpMYB-1 andother homologous proteins (Pairwise comparison program was used: gappenalty: 10; gap extension penalty: 0.1; score matrix: blosum62).Swiss-Prot# Q9LLM9 Q9ZTD9 Q9SEZ4 Q9ZTD7 Q9MBG3 Protein name Myb-likePutative Putative Myb Putative Myb protein transcription familytranscription transcription factor transcription factor factor-likefactor protein Species Oryza sativa Arabidopsis Arabidopsis ArabidopsisArabidopsis (Rice) thaliana thaliana thaliana thaliana (Mouse-ear(Mouse-ear (Mouse-ear (Mouse-ear cress) cress) cress) cress) Identity %37% 37% 32% 36% 29% Similarity % 47% 44% 38% 44% 37%

Example 6 Cloning of the Full-length Physcomitrella patens cDNA Encodingfor APS-2, ZF-2, ZF-3, ZF-4, ZF-5, MYB-1, CABF-3 and SFL-1

Full-length clones corresponding to CABF-3 (SEQ ID NO:15) and APS-2 (SEQID NO:9) were obtained by performing polymerase chain reaction (PCR)with gene-specific primers (see Table 10) and the original EST as thetemplate since they were full-length. The conditions for the reactionare described below under “Full-length Amplification.”

To isolate the clones encoding for PpZF-2, PpZF-3, PpZF-4, PpZF-5PpAPS-1, PpSFL-1 and PpMYB-1 from Physcomitrella patens, cDNA librarieswere created with SMART RACE cDNA Amplification kit (ClontechLaboratories) following the manufacturer's instructions. Total RNAisolated as described in Example 3 was used as the template. Thecultures were treated prior to RNA isolation as follows: Salt Stress: 2,6, 12, 24, 48 hours with 1-M NaCl-supplemented medium; Cold Stress: 4°C. for the same time points as for salt; Drought Stress: cultures wereincubated on dry filter paper for the same time points above. RNA wasthen pulled and used for isolation.

5′ RACE Protocol

The EST sequences PpZF-2 (SEQ ID NO:2), PpZF-3 (SEQ ID NO:3), PpZF-4(SEQ ID NO:4), PpZF-5 (SEQ ID NO:5), PpMYB-1 (SEQ ID NO:6) and PpSFL-1(SEQ ID NO:8) identified from the database search as described inExample 5 were used to design oligos for RACE (see Table 1). Theextended sequences for these genes were obtained by performing RapidAmplification of cDNA Ends polymerase chain reaction (RACE PCR) usingthe Advantage 2 PCR kit (Clontech Laboratories) and the SMART RACE cDNAamplification kit (Clontech Laboratories) using a Biometra T3Thermocycler following the manufacturer's instructions.

The sequences obtained from the RACE reactions contained the 5′ end ofthe full-length coding regions of for PpZF-2, PpZF-3, PpZF-4, PpZF-5PpAPS-1, PpSFL-1 and PpMYB-1 and were used to design oligos forfull-length cloning of the respective genes (see below under“Full-length Amplification).”

Full-length Amplification

Full-length clones corresponding to PpCABF-3 (SEQ ID NO:15) and PpAPS-2(SEQ ID NO:9) were obtained by performing polymerase chain reaction(PCR) with gene-specific primers (see Table 10) and the original EST asthe template. The conditions for the reaction were standard conditionswith PWO DNA polymerase (Roche). PCR was performed according to standardconditions and to manufacture's protocols (Sambrook et al. 1989.Molecular Cloning, A Laboratory Manual. 2nd Edition. Cold Spring HarborLaboratory Press. Cold Spring Harbor, N.Y., Biometra T3 Thermocycler).The parameters for the reaction were: five minutes at 94° C. followed byfive cycles of one minute at 94° C., one minute at 50° C. and 1.5minutes at 72° C. This was followed by twenty five cycles of one minuteat 94° C., one minute at 65° C. and 1.5 minutes at 72° C.

Full-length clones for PpZF-2 (SEQ ID NO:10), PpZF-3 (SEQ ID NO:11),PpZF-4 (SEQ ID NO:12), PpZF-5 (SEQ ID NO:13), PpMYB-1 (SEQ ID NO:14) andPpSFL-1 (SEQ ID NO:16) and were isolated by repeating the RACE methodbut using the gene-specific primers as given in Table 10.

The amplified fragments were extracted from agarose gel with a QIAquickGel Extraction Kit (Qiagen) and ligated into the TOPO pCR 2.1 vector(Invitrogen) following manufacture's instructions. Recombinant vectorswere transformed into Top10 cells (Invitrogen) using standard conditions(Sambrook et al. 1989. Molecular Cloning, A Laboratory Manual. 2ndEdition. Cold Spring Harbor Laboratory Press. Cold Spring Harbor, N.Y.).Transformed cells were selected for on LB agar containing 100 μg/mlcarbenicillin, 0.8 mg X-gal (5-bromo-4-chloro-3-indolyl-β-D-galactoside)and 0.8 mg IPTG (isopropylthio-β-D-galactoside) grown overnight at 37°C. White colonies were selected and used to inoculate 3 ml of liquid LBcontaining 100 μg/ml ampicillin and grown overnight at 37° C. PlasmidDNA was extracted using the QIAprep Spin Miniprep Kit (Qiagen) followingmanufacture's instructions. Analyses of subsequent clones andrestriction mapping was performed according to standard molecularbiology techniques (Sambrook et al. 1989. Molecular Cloning, ALaboratory Manual. 2nd Edition. Cold Spring Harbor Laboratory Press.Cold Spring Harbor, N.Y.).

TABLE 10 Sites in the final Isolation Primer Full- Gene product MethodPrimers Race length PCR PpCABF-3 XmaI/ PCR of N/A RC405 SacI original(SEQ ID NO:28) EST ATCCCGGGCAGCGAGC clone ACACAGCTAGCAACTC TT RC406 (SEQID NO:29) GCGAGCTCACTCCCTC ACGCGGTTGACAATCT PpZF-2 XmaI/ 5′ RACE RC189RC606 SacI and RT- (SEQ ID NO:30) (SEQ ID NO:31) PCR for TGGCGGCCTCATCCCGGGAGGAAGCT Full- GGTCTTCTTC GTCAGGGAAGAGATGG length TCAGT A cloneRC607 (SEQ ID NO:32) GCGAGCTCTGGCCGTA AAATCAGTTGTGGCGC TT PpZF-3 XmaI/5′ RACE RC188 RC604 EcoRV and RT- (SEQ ID NO:33) (SEQ ID NO:34) PCR forCAGCGAAGCC ATCCCGGGAGGAGGAC Full- CAATCGGGAT TTGCGGAATGCAAATC lengthCAGCA RC605 clone (SEQ ID NO:35) GCGATATCCACCTGCT TCCACTCTCTACTTATGPpZF-4 XmaI/ 5′ RACE RC185 RC564 SacI and RT- (SEQ ID NO:36) (SEQ IDNO:37) PCR for GACACCCGAT ATCCCGGGCACCAGTC Full- TGAGCCGGCACCGCTTAGTGTGTGTGT length AGACG RC565 clone (SEQ ID NO:38)GCGAGCTCTTGATGCG ACTCGCTCTCTCGAT PpZF-5 XmaI/ 5′ RACE RC187 RC612 SacIand RT- (SEQ ID NO:39) (SEQ ID NO:40) PCR for CGGCGAGTGCATCCCGGGTATCGATC Full- AGCAGCTTCT TGGAGCCCGTTGCAA length AGAACG RC613clone (SEQ ID NO:41) GCGAGCTCCTCCAAAG GACTTTGAAATATAGC PpAPS-2 EcoRV/PCR of N/A RC395 SacI original (SEQ ID NO:42) EST GATATCGGAAGAAGAA cloneTCCAAGGGAATGCGGT T RC396 (SEQ ID NO:43) GCGAGCTCTATGCTTCCGTGGGAGGAGCTTCA C PpSFL-1 XmaI/ 5′ RACE RC172 RC884 SacI and RT- (SEQID NO:44) (SEQ ID NO:46) PCR for CCGGCTGGGTT ATCCCGGGCTCGGAAG Full-GCCTCAGCTTG GACTGTGCATTGTCGA length CGCA RC885 clone RC538 (SEQ IDNO:47) (SEQ ID NO:45) GCGAGCTCGCAGCAGA CGCTCCATCGA AGAAATCCACTTCTGGACCTGGTGCCT T TTGC PpMYB-1 SmaI/ 5′ RACE RC170 RC701 SmaI and RT- (SEQID NO:48) (SEQ ID NO:49) PCR for GGGTGCCGGTT ATCCCGGGCTGTTGTG Full-GATGCGAGGG TACAGTCTGTGGA length TCCAG RC702 clone (SEQ ID NO:50)ATCCCGGGCTCACGGA GTAAAGGCCGTACCTT

Example 7 Engineering Stress-tolerant Arabidopsis Plants byOver-expressing the Genes APS-2, ZF-2, ZF-3, ZF-4, ZF-5, MYB-1, CABF-3and SFL-1

Binary Vector Construction:

The plasmid construct pACGH101 was digested with PstI (Roche) and FseI(NEB) according to manufacturers' instructions. The fragment waspurified by agarose gel and extracted via the Qiaex II DNA Extractionkit (Qiagen). This resulted in a vector fragment with the ArabidopsisActin2 promoter with internal intron and the OCS3 terminator. Primersfor PCR amplification of the NPTII gene were designed as follows:

5′NPT-Pst: GCG-CTG-CAG-ATT-TCA-TTT-GGA-GAG-GAC- (SEQ ID NO:51) ACG3′NPT-Fse: CGC-GGC-CGG-CCT-CAG-AAG-AAC-TCG-TCA- (SEQ ID NO:52)AGA-AGG-CG.

The 0.9 kilobase NPTII gene was amplified via PCR from pCambia 2301plasmid DNA (94° C. for 60 seconds, {94° C. for 60 seconds, 61° C.(−0.1° C. per cycle) for 60 seconds, 72° C. for 2 minutes)×25 cycles,72° C. for 10 minutes on Biometra T-Gradient machine), and purified viathe Qiaquick PCR Extraction kit (Qiagen) as per manufacturer'sinstructions. The PCR DNA was then subcloned into the pCR-BluntII TOPOvector (Invitrogen) pursuant to the manufacturer's instructions(NPT-Topo construct). These ligations were transformed into Top10 cells(Invitrogen) and grown on LB plates with 50 μg/ml kanamycin sulfateovernight at 37° C. Colonies were then used to inoculate 2 ml LB mediawith 50 μg/ml kanamycin sulfate and grown overnight at 37° C. PlasmidDNA was recovered using the Qiaprep Spin Miniprep kit (Qiagen) andsequenced in both the 5′ and 3′ directions using standard conditions.Subsequent analysis of the sequence data using VectorNTI softwarerevealed no PCR errors present in the NPTII gene sequence.

The NPT-Topo construct was then digested with PstI (Roche) and FseI(NEB) according to manufacturers' instructions. The 0.9 kilobasefragment was purified on agarose gel and extracted by Qiaex II DNAExtraction kit (Qiagen). The Pst/Fse insert fragment from NPT-Topo andthe Pst/Fse vector fragment from pACGH101 were then ligated togetherusing T4 DNA Ligase (Roche) following manufacturer's instructions. Theligation was then transformed into Top10 cells (Invitrogen) understandard conditions, creating pBPSsc019 construct. Colonies wereselected on LB plates with 50 μg/ml kanamycin sulfate and grownovernight at 37° C. These colonies were then used to inoculate 2 ml LBmedia with 50 μg/ml kanamycin sulfate and grown overnight at 37° C.Plasmid DNA was recovered using the Qiaprep Spin Miniprep kit (Qiagen)following the manufacturer's instructions.

The pBPSSC019 construct was digested with KpnI and BsaI (Roche)according to manufacturer's instructions. The fragment was purified viaagarose gel and then extracted via the Qiaex II DNA Extraction kit(Qiagen) as per its instructions, resulting in a 3 kilobase Act-NPTcassette, which included the Arabidopsis Actin2 promoter with internalintron, the NPTII gene and the OCS3 terminator.

The pBPSJH001 vector was digested with SpeI and ApaI (Roche) andblunt-end filled with Klenow enzyme and 0.1 mM dNTPs (Roche) accordingto manufacture's instructions. This produced a 10.1 kilobase vectorfragment minus the Gentamycin cassette, which was recircularized byself-ligating with T4 DNA Ligase (Roche), and transformed into ToplOcells (Invitrogen) via standard conditions. Transformed cells wereselected for on LB agar containing 50 μg/ml kanamycin sulfate and grownovernight at 37° C. Colonies were then used to inoculate 2 ml of liquidLB containing 50 μg/ml kanamycin sulfate and grown overnight at 37° C.Plasmid DNA was extracted using the QIAprep Spin Miniprep Kit (Qiagen)following manufacture's instructions. The recircularized plasmid wasthen digested with KpnI (Roche) and extracted from agarose gel via theQiaex II DNA Extraction kit (Qiagen) as per manufacturer's instructions.

The Act-NPT Kpn-cut insert and the Kpn-cut pBPSJH001 recircularizedvector were then ligated together using T4 DNA Ligase (Roche) andtransformed into Top10 cells (Invitrogen) as per manufacturers'instructions. The resulting construct, pBPSsc022, now contained theSuper Promoter, the GUS gene, the NOS terminator, and the Act-NPTcassette. Transformed cells were selected for on LB agar containing 50μg/ml kanamycin sulfate and grown overnight at 37° C. Colonies were thenused to inoculate 2 ml of liquid LB containing 50 μg/ml kanamycinsulfate and grown overnight at 37° C. Plasmid DNA was extracted usingthe QIAprep Spin Miniprep Kit (Qiagen) following manufacturer'sinstructions. After confirmation of ligation success via restrictiondigests, pBPSsc022 plasmid DNA was further propagated and recoveredusing the Plasmid Midiprep Kit (Qiagen) following the manufacturer'sinstructions.

Subcloning of APS-2, ZF-2, ZF-3, ZF-4, ZF-5, MYB-1, CABF-3 and SFL-1into the Binary Vector

The fragments containing the different Physcomitrella patenstranscription factors were subcloned from the recombinant PCR2.1 TOPOvectors by double digestion with restriction enzymes (see Table 11)according to manufacturer's instructions. The subsequence fragment wasexcised from agarose gel with a QIAquick Gel Extraction Kit (QIAgen)according to manufacture's instructions and ligated into the binaryvectors pBPSSC022, cleaved with XmaI and Ec1136II and dephosphorylatedprior to ligation. The resulting recombinant pBPSSC022 contained thecorresponding transcription factor in the sense orientation under theconstitutive super promoter.

TABLE 11 Listed are the names of the various constructs of thePhyscomitrella patens transcription factors used for planttransformation Enzymes used to generate gene Enzymes used to BinaryVector Gene fragment restrict pBPSJH001 Construct PpCABF-3 XmaI/SacIXmaI/SacI pBPSLVM185 PpZF-2 XmaI/SacI XmaI/SacI pBPSSY008 PpZF-3XmaI/EcoRV XmaI/Ecl136 pBPSSY017 PpZF-4 XmaI/SacI XmaI/SacI pBPSLVM163PpZF-5 XmaI/SacI XmaI/SacI pBPSERG006 PpAPS-2 EcoRV/SacI SmaI/SacIpBPSLVM161 PpSFL-1 XmaI/SacI XmaI/SacI pBPSERG001 PpMYB-1 SmaI/SmaISmaI/Ecl136 pBPSERG020Agrobacterium Transformation

The recombinant vectors were transformed into Agrobacterium tumefaciensC58C1 and PMP90 according to standard conditions (Hoefgen andWillmitzer, 1990).

Plant Transformation

Arabidopsis thaliana ecotype C24 were grown and transformed according tostandard conditions (Bechtold 1993, Acad. Sci. Paris. 316:1194-1199;Bent et al. 1994, Science 265:1856-1860).

Screening of Transformed Plants

T1 seeds were sterilized according to standard protocols (Xiong et al.1999, Plant Molecular Biology Reporter 17: 159-170). Seeds were platedon ½ Murashige and Skoog media (MS) (Sigma-Aldrich) pH 5.7 with KOH,0.6% agar and supplemented with 1% sucrose, 0.5 g/L2-[N-Morpholino]ethansulfonic acid (MES) (Sigma-Aldrich), 50 μg/mlkanamycin (Sigma-Aldrich), 500 μg/ml carbenicillan (Sigma-Aldrich) and 2μg/ml benomyl (Sigma-Aldrich). Seeds on plates were vernalized for fourdays at 4° C. The seeds were germinated in a climatic chamber at an airtemperature of 22° C. and light intensity of 40 micromol s⁻¹m⁻² (whitelight; Philips TL 65W/25 fluorescent tube) and 16 hours light and 8hours dark day length cycle. Transformed seedlings were selected after14 days and transferred to ½ MS media pH 5.7 with KOH 0.6% agar platessupplemented with 0.6% agar, 1% sucrose, 0.5 g/L MES (Sigma-Aldrich),and 2 μg/ml benomyl (Sigma-Aldrich) and allowed to recover forfive-seven days.

Drought Tolerance Screening

T1 seedlings were transferred to dry, sterile filter paper in a petridish and allowed to desiccate for two hours at 80% RH (relativehumidity) in a Percival Growth CU3615, micromole s⁻¹m⁻² (white light;Philips TL 65W/25 fluorescent tube). The RH was then decreased to 60%and the seedlings were desiccated further for eight hours. Seedlingswere then removed and placed on ½ MS 0.6% agar plates supplemented with2 μg/ml benomyl (Sigma-Aldrich) and 0.5 g/L MES ((Sigma-Aldrich) andscored after five days.

Under drought stress conditions, PpCABF-3 over-expressing Arabidopsisthaliana plants showed a 70% (39 survivors from 56 stressed plants)survival rate to the stress screening; PpZF-2, 98% (39 survivors from 40stressed plants); PpZF-3, 94% (59 survivors from 63 stressed plants);PpZF-4, 94% (16 survivors from 17 stressed plants); PpZF-5, 80% (8survivors from 10 stressed plants); PpAPS-2 65% (13 survivors from 20stressed plants); and PpMYB-1 80% (8 survivors from 10 stressed plants);whereas the untransformed control a 28% (16 survivors from 57 stressedplants) survival rate. It is noteworthy that the analyses of thesetransgenic lines were performed with T1 plants, and therefore, theresults will be better when a homozygous, strong expresser is found.

TABLE 12 Summary of the drought stress tests Drought Stress Test Numberof Total number Percentage of Gene Name survivors of plants survivorsPpCABF-3 39 56 70% PpZF-2 39 40 98% PpZF-3 59 63 94% PpZF-4 16 17 94%PpZF-5 8 10 80% PpAPS-2 13 20 65% PpMYB-1 8 10 80% Control 16 57 28%Freezing Tolerance Screening

Seedlings were moved to petri dishes containing ½ MS 0.6% agarsupplemented with 2% sucrose and 2 μg/ml benomyl. After four days, theseedlings were incubated at 4° C. for 1 hour and then covered withshaved ice. The seedlings were then placed in an EnvironmentalSpecialist ES2000 Environmental Chamber and incubated for 3.5 hoursbeginning at −1.0° C. decreasing 1° C./hour. The seedlings were thenincubated at −5.0° C. for 24 hours and then allowed to thaw at 5° C. for12 hours. The water was poured off and the seedlings were scored after 5days.

Under freezing stress conditions, PpCABF-3 over-expressing Arabidopsisthaliana plants showed an 98% (41 survivors from 42 stressed plants)survival rate to the stress screening; PpZF-2, 86% (19 survivors from 22stressed plants); and PpZF-3, 74% (14 survivors from 19 stressedplants); whereas the untransformed control a 28% (16 survivors from 57stressed plants) survival rate. It is noteworthy that the analyses ofthese transgenic lines were performed with T1 plants, and therefore, theresults will be better when a homozygous, strong expresser is found.

TABLE 13 Summary of the freezing stress tests Freezing Stress TestNumber of Total number Percentage of Gene Name survivors of plantssurvivors PpCABF-3 41 42 98% PpZF-2 19 22 86% PpZF-3 14 19 74% Control 148  2%Salt Tolerance Screening

Seedlings were transferred to filter paper soaked in ½ MS and placed on½ MS 0.6% agar supplemented with 2 μg/ml benomyl the night before thesalt tolerance screening. For the salt tolerance screening, the filterpaper with the seedlings was moved to stacks of sterile filter paper,soaked in 50 mM NaCl, in a petri dish. After two hours, the filter paperwith the seedlings was moved to stacks of sterile filter paper, soakedwith 200 mM NaCl, in a petri dish. After two hours, the filter paperwith the seedlings was moved to stacks of sterile filter paper, soakedin 600 mM NaCl, in a petri dish. After 10 hours, the seedlings weremoved to petri dishes containing ½ MS 0.6% agar supplemented with 2μg/ml benomyl. The seedlings were scored after 5 days.

The transgenic plants are screened for their improved salt tolerancedemonstrating that transgene expression confers salt tolerance.

Example 8 Detection of the APS-2, ZF-2, ZF-3, ZF-4, ZF-5, MYB-1, CABF-3and SFL-1 Transgenes in the Transgenic Arabidopsis Lines

One leaf from a wild type and a transgenic Arabidopsis plant washomogenized in 250 μl Hexadecyltrimethyl ammonium bromide (CTAB) buffer(2% CTAB, 1.4 M NaCl, 8 mM EDTA and 20 mM Tris pH 8.0) and 1 μlβ-mercaptoethanol. The samples were incubated at 60-65° C. for 30minutes and 250 μl of Chloroform was then added to each sample. Thesamples were vortexed for 3 minutes and centrifuged for 5 minutes at18,000×g. The supernatant was taken from each sample and 150 μlisopropanol was added. The samples were incubated at room temperaturefor 15 minutes, and centrifuged for 10 minutes at 18,000×g. Each pelletwas washed with 70% ethanol, dried, and resuspended in 20 μl TE. 4 μl ofabove suspension was used in a 20 μl PCR reaction using Taq DNApolymerase (Roche Molecular Biochemicals) according to themanufacturer's instructions. Binary vector plasmid with each gene clonedin was used as positive control, and the wild type C24 genomic DNA wasused as negative control in the PCR reactions. 10 μl PCR reaction wasanalyzed on 0.8% agarose/ethidium bromide gel. The PCR program used wasas follows: 30 cycles of 1 minute at 94° C., 1 minute at 62° C. and 4minutes at 70° C., followed by 10 minutes at 72° C. The following primerwas used as 5′ primer: Bfwd: 5′GCTGACACGCCAAGCCTCGCTAGTC3′. (SEQ IDNO:53) The gene-specific primers and the size of the amplified bands(Gene Product Size) are listed below.

PpCABF-3 Primer: RC406: (SEQ ID NO:54) GCGAGCTCACTCCCTCACGCGGTTGACAATCTGene Product Size: 800 bp PpZF-2 Primer: RC607: (SEQ ID NO:55)GCGAGCTCTGGCCGTAAAATCAGTTGTGGCGCTT Gene Product Size: 1800 bp PpZF-3Primer: RC605: (SEQ ID NO:56) GCGATATCCACCTGCTTCCACTCTCTACTTATG GeneProduct Size: 2000 bp PpZF-4 Primer: RC565: (SEQ ID NO:57)GCGAGCTCTTGATGCGACTCGCTCTCTCGAT Gene Product Size: 800 bp PpZF-5 Primer:RC613: (SEQ ID NO:58) GCGAGCTCCTCCAAAGGACTTTGAAATATAGC Gene ProductSize: 2700 bp PpAPS-2 Primer: RC396: (SEQ ID NO:59)GCGAGCTCTATGCTTCCGTGGGAGGAGCTTCAC Gene Product Size: 1000 bp PpSFL-1Primer: RC885: (SEQ ID NO:60) GCGAGCTCGCAGCAGAAGAAATCCACTTCTGGT GeneProduct Size: 1700 bp PpMYB-1 Primer: RC702: (SEQ ID NO:61)ATCCCGGGCTCACGGAGTAAAGGCCGTACCTT Gene Product Size: 2400 bp

The transgenes were successfully amplified from the T1 transgenic lines,but not from the wild type C24. This result indicates that the T1transgenic plants contain at least one copy of the transgenes. There wasno indication of existence of either identical or very similar genes inthe untransformed Arabidopsis thaliana control which could be amplifiedby this method.

Example 9 Detection of the APS-2, ZF-2, ZF-3, ZF-4, ZF-5, MYB-1, CABF-3and SFL-1 Transgene mRNA in Transgenic Arabidopsis Lines

Transgene expression was detected using RT-PCR. Total RNA was isolatedfrom stress-treated plants using a procedure adapted from (Verwoerd etal., 1989 NAR 17:2362). Leaf samples (50-100 mg) were collected andground to a fine powder in liquid nitrogen. Ground tissue wasresuspended in 500 μl of a 80° C., 1:1 mixture, of phenol to extractionbuffer (100 mM LiCl, 100 mM Tris pH8, 10 mM EDTA, 1% SDS), followed bybrief vortexing to mix. After the addition of 250 μl of chloroform, eachsample was vortexed briefly. Samples were then centrifuged for 5 minutesat 12,000×g. The upper aqueous phase was removed to a fresh eppendorftube. RNA was precipitated by adding 1/10^(th) volume 3M sodium acetateand 2 volumes 95% ethanol. Samples were mixed by inversion and placed onice for 30 minutes. RNA was pelleted by centrifugation at 12,000×g for10 minutes. The supernatant was removed and pellets briefly air-dried.RNA sample pellets were resuspended in 10 μl DEPC treated water.

To remove contaminating DNA from the samples, each was treated withRNase-free DNase (Roche) according to the manufacturer'srecommendations. cDNA was synthesized from total RNA using the 1^(st)Strand cDNA synthesis kit (Boehringer Mannheim) following manufacturer'srecommendations. PCR amplification of a gene-specific fragment from thesynthesized cDNA was performed using Taq DNA polymerase (Roche) andgene-specific primers (see Table 4 for primers) in the followingreaction: 1×PCR buffer, 1.5 mM MgCl₂, 0.2 μM each primer, 0.2 μM dNTPs,1 unit polymerase, 5 μl cDNA from synthesis reaction. Amplification wasperformed under the following conditions: Denaturation, 95° C., 1minute; annealing, 62° C., 30 seconds; extension, 72° C., 1 minute, 35cycles; extension, 72° C., 5 minutes; hold, 4° C., forever. PCR productswere run on a 1% agarose gel, stained with ethidium bromide, andvisualized under UV light using the Quantity-One gel documentationsystem (Bio-Rad).Expression of the transgenes was detected in the T1transgenic line.

These results indicated that the transgenes are expressed in thetransgenic lines and strongly suggested that their gene product improvedplant stress tolerance in the transgenic lines. In agreement with theprevious statement, no expression of identical or very similarendogenous genes could be detected by this method. These results are inagreement with the data from Example 7.

TABLE 14 Primers used for the amplification of respective transgene mRNAin PCR using RNA isolated from transgenic Arabidopsis thaliana plants astemplate Gene 5′ primer 3′ primer PpCABF-2 RC405: RC406: (SEQ ID NO:62)(SEQ ID NO:63) ATCCCGGGCAGCGAGCA GCGAGCTCACTCCCTCAC CACAGCTAGCAACTCTTGCGGTTGACAATCT PpZF-2 RC1191: RC1192: (SEQ ID NO:64) (SEQ ID NO:65)GCCCGTTGTGTCGCACGA GCCGCTGGACCAGACCT GTGTGGGA CGGAATGT PpZF-3 RC1203:RC1204: (SEQ ID NO:66) (SEQ ID NO:67) GAGGCAGTCATGCAATCGCGAAGCCCAATCGGGA GACCCCAA TCAGCAGCA PpZF-4 RC564: RC565: (SEQ ID NO:68)(SEQ ID NO:69) ATCCCGGGCACCAGTCCC GCGAGCTCTTGATGCGAC GCTTAGTGTGTGTGTTCGCTCTCTCGAT PpZF-5 RC1209: RC1210: (SEQ ID NO:70) (SEQ ID NO:71)CGCATCGCATCTGGCG 3′ primer for EST281 AACTTTGTG at #1368 GC = 58%CGTACCACGATTGCTCTA GCGCACGT PpAPS-1 RC395: RC396: (SEQ ID NO:72) (SEQ IDNO:73) GCGATATCGGAAGAAGA GCGAGCTCTATGCTTCCG ATCCAAGGGAATGCGGTTGGGAGGAGCTTCAC T PpAPS- RC405: RC406: (SEQ ID NO:74) (SEQ ID NO:75)ATCCCGGGCAGCGAGCA GCGAGCTCACTCCCTCAC CACAGCTAGCAACTCTT GCGGTTGACAATCTPpSFL-1 RC1191: RC1192: (SEQ ID NO:76) (SEQ ID NO:77) GCCCGTTGTGTCGCACGAGCCGCTGGACCAGACCT GTGTGGGA CGGAATGT PpMYB-1 RC1203: RC1204: (SEQ IDNO:78) (SEQ ID NO:79) GAGGCAGTCATGCAAT GCGAAGCCCAATCGGG CGACCCCAAATCAGCAGCA

Example 10 Engineering Stress-tolerant Soybean Plants by Over-expressingthe APS-2, ZF-2, ZF-3, ZF-4, ZF-5, MYB-1, CABF-3 and SFL-1 Gene

The constructs pBPSLVM185, pBPSSY008, pBPSSY017, pBPSLVM163, pBPSERG006,pBPSLVM161, pBPSERG001 and pBPSERG020 are used to transform soybean asdescribed below.

Seeds of soybean are surface sterilized with 70% ethanol for 4 minutesat room temperature with continuous shaking, followed by 20% (v/v)Clorox supplemented with 0.05% (v/v) Tween for 20 minutes withcontinuous shaking. Then, the seeds are rinsed 4 times with distilledwater and placed on moistened sterile filter paper in a Petri dish atroom temperature for 6 to 39 hours. The seed coats are peeled off, andcotyledons are detached from the embryo axis. The embryo axis isexamined to make sure that the meristematic region is not damaged. Theexcised embryo axes are collected in a half-open sterile Petri dish andair-dried to a moisture content less than 20% (fresh weight) in a sealedPetri dish until further use.

Agrobacterium tumefaciens culture is prepared from a single colony in LBsolid medium plus appropriate antibiotics (e.g. 100 mg/l streptomycin,50 mg/l kanamycin) followed by growth of the single colony in liquid LBmedium to an optical density at 600 nm of 0.8. Then, the bacteriaculture is pelleted at 7000 rpm for 7 minutes at room temperature, andresuspended in MS (Murashige and Skoog, 1962) medium supplemented with100 μM acetosyringone. Bacteria cultures are incubated in thispre-induction medium for 2 hours at room temperature before use. Theaxis of soybean zygotic seed embryos at approximately 15% moisturecontent are imbibed for 2 hours at room temperature with the pre-inducedAgrobacterium suspension culture. The embryos are removed from theimbibition culture and are transferred to Petri dishes containing solidMS medium supplemented with 2% sucrose and incubated for 2 days, in thedark at room temperature. Alternatively, the embryos are placed on topof moistened (liquid MS medium) sterile filter paper in a Petri dish andincubated under the same conditions described above. After this period,the embryos are transferred to either solid or liquid MS mediumsupplemented with 500 mg/L carbenicillin or 300 mg/L cefotaxime to killthe agrobacteria. The liquid medium is used to moisten the sterilefilter paper. The embryos are incubated during 4 weeks at 25° C., under150 μmol m⁻²sec⁻¹ and 12 hours photoperiod. Once the seedlings producedroots, they are transferred to sterile metromix soil. The medium of thein vitro plants is washed off before transferring the plants to soil.The plants are kept under a plastic cover for 1 week to favor theacclimatization process. Then the plants are transferred to a growthroom where they are incubated at 25° C., under 150 μmol m⁻²sec⁻¹ lightintensity and 12 hours photoperiod for about 80 days.

The transgenic plants are then screened for their improved drought, saltand/or cold tolerance according to the screening method described inExample 7 to demonstrate that transgene expression confers stresstolerance.

Example 11 Engineering Stress-tolerant Rapeseed/Canola Plants byOver-expressing the APS-2, ZF-2, ZF-3, ZF-4, ZF-5, MYB-1, CABF-3 andSFL-1 Genes

The constructs pBPSLVM185, pBPSSY008, pBPSSY017, pBPSLVM163, pBPSERG006,pBPSLVM161, pBPSERG001 and pBPSERG020 are used to transformrapseed/canola as described below.

The method of plant transformation described herein is also applicableto Brassica and other crops. Seeds of canola are surface sterilized with70% ethanol for 4 minutes at room temperature with continuous shaking,followed by 20% (v/v) Clorox supplemented with 0.05% (v/v) Tween for 20minutes, at room temperature with continuous shaking. Then, the seedsare rinsed 4 times with distilled water and placed on moistened sterilefilter paper in a Petri dish at room temperature for 18 hours. Then theseed coats are removed and the seeds are air dried overnight in ahalf-open sterile Petri dish. During this period, the seeds lose approx.85% of its water content. The seeds are then stored at room temperaturein a sealed Petri dish until further use. DNA constructs and embryoimbibition are as described in Example 10. Samples of the primarytransgenic plants (T0) are analyzed by PCR to confirm the presence ofT-DNA. These results are confirmed by Southern hybridization in whichDNA is electrophoresed on a 1% agarose gel and transferred to apositively charged nylon, membrane (Roche Diagnostics). The PCR DIGProbe Synthesis Kit (Roche Diagnostics) is used to prepare adigoxigenin-labelled probe by PCR, and used as recommended by themanufacturer.

The transgenic plants are then screened for their improved stresstolerance according to the screening method described in Example 7 todemonstrate that transgene expression confers drought tolerance.

Example 12 Engineering Stress-tolerant Corn Plants by Over-expressingthe APS-2, ZF-2, ZF-3, ZF-4, ZF-5, MYB-1, CABF-3 or SFL-1 Genes

The constructs pBPSLVM185, pBPSSY008, pBPSSY017, pBPSLVM163, pBPSERG006,pBPSLVM161, pBPSERG001 and pBPSERG020 are used to transform corn asdescribed below.

Transformation of maize (Zea Mays L.) is performed with the methoddescribed by Ishida et al. 1996. Nature Biotch 14745-50. Immatureembryos are co-cultivated with Agrobacterium tumefaciens that carry“super binary” vectors, and transgenic plants are recovered throughorganogenesis. This procedure provides a transformation efficiency ofbetween 2.5% and 20%. The transgenic plants are then screened for theirimproved drought, salt and/or cold tolerance according to the screeningmethod described in Example 7 to demonstrate that transgene expressionconfers stress tolerance.

Example 13 Engineering Stress-tolerant Wheat Plants by Over-expressingthe APS-2, ZF-2, ZF-3, ZF-4, ZF-5, MYB-1, CABF-3 or SFL-1 Genes

The constructs pBPSLVM185, pBPSSY008, pBPSSY017, pBPSLVM163, pBPSERG006,pBPSLVM161, pBPSERG001, pBPSERG020 are used to transform wheat asdescribed below.

Transformation of wheat is performed with the method described by Ishidaet al. 1996 Nature Biotch. 14745-50. Immature embryos are co-cultivatedwith Agrobacterium tumefaciens that carry “super binary” vectors, andtransgenic plants are recovered through organogenesis. This procedureprovides a transformation efficiency between 2.5% and 20%. Thetransgenic plants are then screened for their improved stress toleranceaccording to the screening method described in Example 7 to demonstratethat transgene expression confers drought tolerance.

Example 14 Identification of Homologous and Heterologous Genes

Gene sequences can be used to identify homologous or heterologous genesfrom cDNA or genomic libraries. Homologous genes (e. g. full-length cDNAclones) can be isolated via nucleic acid hybridization using for examplecDNA libraries. Depending on the abundance of the gene of interest,100,000 up to 1,000,000 recombinant bacteriophages are plated andtransferred to nylon membranes. After denaturation with alkali, DNA isimmobilized on the membrane by e. g. UV cross linking. Hybridization iscarried out at high stringency conditions. In aqueous solutionhybridization and washing is performed at an ionic strength of 1 M NaCland a temperature of 68° C. Hybridization probes are generated by e.g.radioactive (³²P) nick transcription labeling (High Prime, Roche,Mannheim, Germany). Signals are detected by autoradiography.

Partially homologous or heterologous genes that are related but notidentical can be identified in a manner analogous to the above-describedprocedure using low stringency hybridization and washing conditions. Foraqueous hybridization, the ionic strength is normally kept at 1 M NaClwhile the temperature is progressively lowered from 68 to 42° C.

Isolation of gene sequences with homologies (or sequenceidentity/similarity) only in a distinct domain of (for example 10-20amino acids) can be carried out by using synthetic radio labeledoligonucleotide probes. Radio labeled oligonucleotides are prepared byphosphorylation of the 5-prime end of two complementary oligonucleotideswith T4 polynucleotide kinase. The complementary oligonucleotides areannealed and ligated to form concatemers. The double strandedconcatemers are than radiolabeled by, for example, nick transcription.Hybridization is normally performed at low stringency conditions usinghigh oligonucleotide concentrations.

Oligonucleotide hybridization solution:

-   6×SSC-   0.01 M sodium phosphate-   1 mM EDTA (pH 8)-   0.5% SDS-   100 μg/ml denatured salmon sperm DNA-   0.1% nonfat dried milk

During hybridization, temperature is lowered stepwise to 5-10° C. belowthe estimated oligonucleotide Tm or down to room temperature followed bywashing steps and autoradiography. Washing is performed with lowstringency such as 3 washing steps using 4×SSC. Further details aredescribed by Sambrook, J. et al (1989), “Molecular Cloning: A LaboratoryManual”, Cold Spring Harbor Laboratory Press or Ausubel, F. M. et al.(1994) “Current Protocols in Molecular Biology”, John Wiley & Sons.

Example 15 Identification of Homologous Genes by Screening ExpressionLibraries with Antibodies

cDNA clones can be used to produce recombinant protein for example in E.coli (e. g. Qiagen QIAexpress pQE system). Recombinant proteins are thennormally affinity purified via Ni-NTA affinity chromatography (Qiagen).Recombinant proteins are then used to produce specific antibodies forexample by using standard techniques for rabbit immunization. Antibodiesare affinity purified using a Ni-NTA column saturated with therecombinant antigen as described by Gu et al., 1994 BioTechniques17:257-262. The antibody can than be used to screen expression cDNAlibraries to identify homologous or heterologous genes via animmunological screening (Sambrook, J. et al (1989), “Molecular Cloning:A Laboratory Manual”, Cold Spring Harbor Laboratory Press or Ausubel, F.M. et al. (1994) “Current Protocols in Molecular Biology”, John Wiley &Sons).

Example 16 In Vivo Mutagenesis

In vivo mutagenesis of microorganisms can be performed by passage ofplasmid (or other vector) DNA through E. coli or other microorganisms(e.g. Bacillus spp. or yeasts such as Saccharomyces cerevisiae) whichare impaired in their capabilities to maintain the integrity of theirgenetic information. Typical mutator strains have mutations in the genesfor the DNA repair system (e.g., mutHLS, mutD, mutT, etc.; forreference, see Rupp, W. D. (1996) DNA repair mechanisms, in: Escherichiacoli and Salmonella, p. 2277-2294, ASM: Washington.) Such strains arewell known to those skilled in the art. The use of such strains isillustrated, for example, in Greener, A. and Callahan, M. (1994)Strategies 7: 32-34. Transfer of mutated DNA molecules into plants ispreferably done after selection and testing in microorganisms.Transgenic plants are generated according to various examples within theexemplification of this document.

Example 17 In Vitro Analysis of the Function of Physcomitrella Genes inTransgenic Organisms

The determination of activities and kinetic parameters of enzymes iswell established in the art. Experiments to determine the activity ofany given altered enzyme must be tailored to the specific activity ofthe wild-type enzyme, which is well within the ability of one skilled inthe art. Overviews about enzymes in general, as well as specific detailsconcerning structure, kinetics, principles, methods, applications andexamples for the determination of many enzyme activities may be found,for example, in the following references: Dixon, M., and Webb, E. C.,(1979) Enzymes. Longmans: London; Fersht, (1985) Enzyme Structure andMechanism. Freeman: N.Y.; Walsh, (1979) Enzymatic Reaction Mechanisms.Freeman: San Francisco; Price, N. C., Stevens, L. (1982) Fundamentals ofEnzymology. Oxford Univ. Press: Oxford; Boyer, P. D., ed. (1983) TheEnzymes, 3^(rd) ed. Academic Press: New York; Bisswanger, H., (1994)Enzymkinetik, 2^(nd) ed. VCH: Weinheim (ISBN 3527300325); Bergmeyer, H.U., Bergmeyer, J., Graβl, M., eds. (1983-1986) Methods of EnzymaticAnalysis, 3^(rd) ed., vol. I-XII, Verlag Chemie: Weinheim; and Ullmann'sEncyclopedia of Industrial Chemistry (1987) vol. A9, Enzymes. VCH:Weinheim, p. 352-363.

The activity of proteins which bind to DNA can be measured by severalwell-established methods, such as DNA band-shift assays (also called gelretardation assays). The effect of such proteins on the expression ofother molecules can be measured using reporter gene assays (such as thatdescribed in Kolmar, H. et al. (1995) EMBO J. 14: 3895-3904 andreferences cited therein). Reporter gene test systems are well known andestablished for applications in both pro- and eukaryotic cells, usingenzymes such as β-galactosidase, green fluorescent protein, and severalothers.

The determination of activity of membrane-transport proteins can beperformed according to techniques such as those described in Gennis, R.B. Pores, Channels and Transporters, in Biomembranes, MolecularStructure and Function, pp. 85-137, 199-234 and 270-322, Springer:Heidelberg (1989).

Example 18 Purification of the Desired Productfrom Transformed Organisms

Recovery of the desired product from plant material (i.e.,Physcomitrella patents or Arabidopsis thaliana), fungi, algae, ciliates,C. glutamicum cells, or other bacterial cells transformed with thenucleic acid sequences described herein, or the supernatant of theabove-described cultures can be performed by various methods well knownin the art. If the desired product is not secreted from the cells, canbe harvested from the culture by low-speed centrifugation, the cells canbe lysed by standard techniques, such as mechanical force orsonification. Organs of plants can be separated mechanically from othertissue or organs. Following homogenization cellular debris is removed bycentrifugation, and the supernatant fraction containing the solubleproteins is retained for further purification of the desired compound.If the product is secreted from desired cells, then the cells areremoved from the culture by low-speed centrifugation, and the supematefraction is retained for further purification.

The supernatant fraction from either purification method is subjected tochromatography with a suitable resin, in which the desired molecule iseither retained on a chromatography resin while many of the impuritiesin the sample are not, or where the impurities are retained by the resinwhile the sample is not. Such chromatography steps may be repeated asnecessary, using the same or different chromatography resins. Oneskilled in the art would be well-versed in the selection of appropriatechromatography resins and in their most efficacious application for aparticular molecule to be purified. The purified product may beconcentrated by filtration or ultrafiltration, and stored at atemperature at which the stability of the product is maximized.

There is a wide array of purification methods known to the art and thepreceding method of purification is not meant to be limiting. Suchpurification techniques are described, for example, in Bailey, J. E. &Ollis, D. F. Biochemical Engineering Fundamentals, McGraw-Hill: New York(1986). Additionally, the identity and purity of the isolated compoundsmay be assessed by techniques standard in the art. These includehigh-performance liquid chromatography (HPLC), spectroscopic methods,staining methods, thin layer chromatography, NIRS, enzymatic assay, ormicrobiologically. Such analysis methods are reviewed in: Patek et al.,1994 Appl. Environ. Microbiol. 60:133-140; Malakhova et al., 1996Biotekhnologiya 11:27-32; and Schmidt et al., 1998 Bioprocess Engineer.19:67-70. Ulmann's Encyclopedia of Industrial Chemistry, (1996) vol.A27, VCH: Weinheim, p. 89-90, p. 521-540, p. 540-547, p. 559-566,575-581 and p. 581-587; Michal, G. (1999) Biochemical Pathways: An Atlasof Biochemistry and Molecular Biology, John Wiley and Sons; Fallon, A.et al. (1987) Applications of HPLC in Biochemistry in: LaboratoryTechniques in Biochemistry and Molecular Biology, vol. 17.

APPENDIX Nucleotide sequence of the partial APS-2 from Physcomitrellapatens (SEQ ID NO:1) TCAAGCCACTCATCCGAGCATAGAACATCACAACCCACCTTGATGATCATTCTCTCAGCCGACCAGCGTCAATTACGCTGCGTATCGCTCTAGCTTGAGGAAGGCACCCTCGCCCTCTTCGCCGCGGAAGTAGCCCTCTGCTTCACGAGGGCGGCAAAACTCTCCCAAGGCAGTTCCGGGGGGATGGGATATAGCTGCAGCTGCTGTGGGGAATCCTCAAAATTGTACGGGATCTTCTTCTTGTGTAGAAGATGCCAACATCGTAGGCCCGGGCAGCTTCTTCCGGAGTTTCATATGTTCCCAGCCATATCTTACGTTTCTGAGATGTGGGTCGAATTTCTGTCACCCATTTGTTTAGCTCGGGCCGGTGCCGAACCCCCCTAAAACTGGTCGTATCGCCAGTGTTGCTAGCAGAAACTTCTTCGGTATCCCATGCCGATGGGGCCTTATTTAAATCAATATTCCGAAATTTAAAGGCATTCCGACCGCTAGTGTCTTTCGCCGCTAACCGCATTCCCTTGGATTCTTCTTCCAAACTAGATTCAGACTTGCTCTCCTGCCAACTTCTTTTTTCACTTTCGGGGATTCTATTTTAGTCGTTAACTGCAACGCCTGTTCTTTGACCTTGCCACCACAAGGATCCCACTTCTTTGTTTTGGGCTTCCCCTGTTCAATAATGCTGGAAATTGTCAAATTCATGAACTACCCAATTGCAACCCCTCCCACCGGGATGGATTGATCGCCAAAATTTCGTAGTAACTTAACTTTCATACAACAACTTGAGTTCCTTCGCTATTAGGGACACGTGGCAGAAACTTGGACGTGCAAGCGTATGTACTCATCAGAGTTTGACAGCGCATAAAATCATATAAAAAGTCTTGAAGAAGCGTTGTTTAATTCATGGGTAACCACGAGTTACGCGGAGCGTCGGCAGCAAGGAGAGGACGACCAGGCGGCAAGAAGATGCGTCGGCAAGAGCTCGTGC Nucleotide sequence of the partialZF-2 from Physcomitrella patens (SEQ ID NO:2)TTTTTTTTGGCGAAAATGGGTAAAAATTTCCGTGGCCGTAAAATCAGTTGTGGCGCTTGCCTTGCAATAAGCTGGTTATCGTAAAATGGCAATTACCTTGATATGTTCACTAGGTTCGTGTCAGTGAGATGCCTTGCAGAAGGCGATTTCCCGTTTATTTACAACTCTACATGTTACTGAAGCACTGTGGCATTCAATCTCCTAACCTAGAGATGCTTAACTGCTTCGTGCATGATCTATATTACATCTTGAGCCTCAGACTGTGGCGTCTTATTGCACATCTAGCGCTATATATTACACTACGGTACACCATCGGAAGAAGTGAAGAAGGAATAGCTACTATTTTGCATCTCCAGTGTCAAATGTGATGCTGACCTGACCTAATCGGCAGAGACGCAGATCTCCAATGCTCACACTTCACATCCTAAAACGCACTTGCAGTGTACCCTGCTCTCAATTCCCATTGCAATTCCACATCTGGGATCTAAGGGCATGCTTTGTGGGCACTAAAGCGCCGATTTCCTCCTCAATGCGAAGGTTGACCTTACTGAGGAAAGTGCGCATCGTAATCGGCGATGTAGGCTTAGGGATTTCGCCGGGTAACACTCAACGCAATCGTGACGTTCGCTAGATAGCTTGGTTGATATCAGGTGCAAATCCCACAAAATCCTTTGCATGGTCGGGCATTTATGTCTACCAGGGAAGTATCAGTTTTCTTCCAGAATAAAATTTCCACTTTAACAGCACCTGCTCACGAAATCCTCAGGCATGTGGTGGTGGTGGACGGGGTGAAGAAGAAGGCCCGCCCTCGTCAACACCATCTTCTCCAGTTTGGGGCGACACCACACTCTTCCCTCGGCTCAACAAACGTCGGAAGCTCGCTGAAGCACGCGCCATCGGCGACAAAACATTCGACGAATTGCTGACAGCCGCTGGACCAGACCTCGGAATGTCGATAGTAACCTGAAACGGCGCACGAATACTGGACGCCGCCCTCGCTTCTGCACTCCCTCCTGCACCTGCACTGCTCATCTGCGCATGATTCCCCCAGAATAACACATTGGACGGGATTCCGGACGGTGTCTCGTAATCTTTTATGTTTTGCTGCTGATCAACCGCAACGGCCGTTTCCGACGTACCACTTCGGCGATGATTCTCCCCGCCCTGATCCTCCGCAGTGCGGGGCAAACTATTGCCTCTTGGGGAACTATTCAACGCCGGCAACTGTCCCCGGCTCCGTTGGCTCCTCCTGGAAGCTCGCATGGCCGCCATGAACGGCGCTCCTACGTCACCCATAACGGGCGCTTCCATCTGAGGAGGCTCGCTTATCTGCATCACGGTGGCGGCCTCGGTCTTCTTCTCAGTTTCATCAGCTCCCACACTCGTGCGACACAACGGGCATGTCGAGTGCGAGTGCAACCACATGTCAATACAATCCAAGTGGAAACTATGGTCACACTTCGGCAACGTGCGGCCTTTCTCACCCAACTCAAATTCTTCCAAACAAACCGCGCACTCGAACCCACGCTTTGCCCTCTCACCGTCGAATTCGAAAGTGGGCAGAGCTTCAATAACAGCCCGCTCAAGCCCCACTGCCTGCGTCACCGGAGTAGCGTTCACAGGGACAGTGTAACGGCGTCTTCGCCATGATAACGTACGCAAGGTGCCATCGCTTGCGACGATCTGGTGC Nucleotide sequence of thepartial ZF-3 from Physcomitrella patens (SEQ ID NO:3)GCACCAGCGCTTTTAAACAATCAAATATCTGAGCAGGTTGATGGCGAAGATTCAGATGTATCAAGAAGTGGCGCTAGTGATCAATCTGGGCATGAAAGACCCCTTGACGTTTTACGCAAGGTGAAAGGAAATGATGCTTGTGCCGACTGCGGTGCTGCTGATCCCGATTGGGCTTCGCTGAATCTTGGGATTCTTCTGTGTATTGAGTGCTCAGGAGTACACAGAAACATGAGCGTTCAGATTTCTAAGGTCCGTTCGTTGACGTTAGATGTCAAAGTTTGGGAGCCTTCTGTAATGAGCTATTTTCAATCTGTCGGAAACTCCTACGCTAATTCTATATGGGAAGAGCTTTTGAATCCCAAGTCCTCAGAGGAGTCAAGTGAGAGAAACGTTAATGACGAGGGACAATCGGGCGTTTTAAGTGCTAGCAGAGCAAGGCCAAGACCTAGAGACCCCATACCTATCAAAGAAAGATTTATCAATGCAAAGTATGTGGAGAA AA Nucleotidesequence of the partial ZF-4 from Physcomitrella patens (SEQ ID NO:4)GCACGAGCTGCCCCATTCGAGCCCACTCGCACGAGAAGATACGAGCCGCGCTTTGGCCGAGTGGTCGTAAGTAGAAGTAAAGGTCCGCGGCCGCTGCGGTCTGTGAAATTCTCTCGCACGGAGAGAAGCGTGTTCTGCTGGTTTCTTCGCACAGAGACTTCTCCTGCACCTTTTCTTCTTCCTCTACATCGTCTCCTGCGACGACTACATTGTGTGGGAGCAGTGGCAACCTTCCTGGCCACCCCGGGCTTCCTCTCAGTCAGTGGCTCACGTCTCCCAGCTAGGCCTCCCATCGCGTCTTGCCGGCTCAATCGGGTGTCTTGCTCTGTTTTTTAACCTCTCTCCCTTCCGGCCCTCTTATTCCTCTCCAGTCACTTCCGCCGGATCGCGACTTTTGTACCCATTTGGGGGTTGGGTGTTATAAGTTTGCCCTCAGGGTGTGAGTTGCTTTGTGTGTCTTTTGTAGTAGTACTTTGCTTGTTGGGTGCGGAAGGGAACCTTTGAGAAGTCGACCCATTCTCTAGTTTTGCACCAGTCCCGCTTAGTGTGTGTGTCATTAGTGTTGGTTGCAAGTCTGAAGCCTTGAGCGAGATTTGCAGGATTTTCTCATACGCTTCTGATTAGGAAAGATACATCCTTATTAGTCTGTTAAAGATGGCCACCGAGCGTGTGTCTCAGGAGACGACCTCGCAGGCCCCTGAGGGTCCAGTTATGTGCAAGAACCTTTGCGGCTTCTTCGGCAGCCAAGCTACCATGGGGTTGTGCTCGAAGTGCTACCGAGAGACAGTCATGCAGCGAAGATGACGGCTTTAGCTGAGCAAGCCACTCAGGCTGCTCAGGCGACATCTGCCACAGCTGCTGCTGTTCAGCCCCCCGCTCCTGTACATGAGACCAAGCTCACATGCGAGGTTGAGAGAACAATGATTGTGCCGCATCAATCTTCCAGCTATCAACAAGACCTGGTTACCCCCGCTGCAGCTGCCCCTCAGGCAGTGAAGTCCTCTATCGCAGCTCCCTCTAGACCCGAGCCCAATCGATGCGGATCTTGCAGGAAGCGTGTTGGATTGACAGGATTTAAGTGTCGCTGTGGCAACCTCTACTGCGCTTTACATCGGTACTCGGACAAACACACTTGCACATATGACTACAAAGCCGCAGGGCAGGAAGCGATTGCGAAAGCTAATCCTCTTGTCGTGGCCGAGAAGGTTGTCAAGTTTTGATGAGCATCCGTTAAGCTTTTCTGCCGACGATTTAGGCTTCATACATTGAGTAACTCTACATCTTTCTTCTTTATCGAGAGAGCGAGTCGCATCAAGATGAAGTCGAGGGGTGCGCGTCGGTTTTGGGGAGAGGGGATTTCTTTCCCCTTTCCCCCCTTGGCGGCATCGTGTTTTATGTGTACAGAAGTAGGTTAGGACAAGATAGAATCATATGCCAGATCAATTGATAGTCCTCTTTAAGGAGGACACTTATTACACAATAAAAAATCCTGGGTAATGCATGCCTTGATTGTGTTGTTTTTTCCTCGTGC Nucleotide sequence of the partial ZF-5from Physcomitrella patens (SEQ ID NO:5)GCGTGGGGCGTCTACACTAGTTTATCCCCGGGCTGAGGAATTCGGCACCAGATTTGTCAATCAAAAGAAGTTAGTTGCGGGTGATGCTATTGTATTTCTTCGCATCGCATCTGGCGAACTTTGTGTCGGCGTGCGCCGTTCAATGAGGGGTGTCAGCAACGGAGAATCCTCATCTTGGCACTCCTCAATCAGTAATGCTTCAACGATTCGGCCATCTCGATGGGAGGTGAAGGGCACAGAAAGTTTCTCGGACTTTTTAGGTGGCGTTGGTGATAATGGGTACGCACTGAATAGCTCAATTCGGTCTGAAAACCAGGGCTCTCCAACAACGAGTAGCTTTGCACGGGACCGTGCTCGTGTTACTGCGAAGTCCGTTCTAGAAGCTGCTGCACTCGCCGTCTCCGGTGAACGTTTTGAGGTTGTGTATTATCCTCGTGCTAGCACAGCTGAGTTCTGTGTCAAAGCTGGGCTTGTTAAACGTGCGCTAGAGCAATCGTGGTACGCTGGAATGCGCTTCAAAATGGCATTTGAAACTGAAGACTCCTCGAGGATAAGCTGGTTTATGGGAACTATTGCTGCTGTTCAAGCAGCAGATCCAGTAACTTGTGGCCTAGTTCTCCATGGCGGGTCTGCAGGTCACCTTGGGATGAGCGGACCTATTGCAGGAGTGATCGTGTAGCCATGGAGTA Nucleotide sequence of thepartial MYB-1 from Physcomitrella patens (SEQ ID NO:6)GCACCAGTGTTCCCTTTCATATGCTCAGCATGTCCGCCAATGAGCGCGCCTGTTGTGTACAGTCTGTGGAGAGCTGTAGAAAATTCAATTCCGATTTCAAAATATCCAGCGACGATGACACGGAACATGGGAGTTTGGAGGACGACATGAAGGAGTTGAACGAAGACATGGAAATTCCCTTAGGTCGAGATGGCGAGGGTATGCAGTCAAAGCAGTGCCCGCGCGGCCACTGGCGTCCAGCGGAAGACGACAAGCTGCGAGAACTAGTGTCCCAGTTTGGACCTCAAAACTGGAATCTCATAGCAGAGAAACTTCAGGGTCGATCAGGGAAAAGCTGCAGGCTACGGTGGTTCAATCAGCTGGACCCTCGCATCAACCGGCACCCATTCTCGGAAGAAGAGGAAGAGCGGCTGCTTATAGCACACAAGCGCTACGGCAACAAGTGGGCATTGATCGCGCGCCTCTTTCCGGGCCGCACAGACAACGCGGTGAAGAATCAC TGGCCC Nucleotidesequence of the partial CABF-3 from Physcomitrella patens (SEQ ID NO:7)GCACCAGGTCTTCGACTTTGCTTCAGCACGCGCGCGTTGTGGTCGATCTCTCGCTGGAGCAACAGGTTGTCTTGTCGCTGCCATTGCTAAAGCCATTCTTACTTCTAGCACTTCTCGGAGGTTATTGATTTCTCGCAAATTGCTCTTCCACCTGCCCTCTTTCGTGAGGGAGTTCGAAGCTGAAAAGTAATGAGCTGAAGATTAAGGTCTTTTACGAGTGAACAGCGAGCACACAGCTAGCAACTCTTTCGGAGAATACTCCAGGCGAAATTGGTCGGATGGCCGATAGCTACGGTCACAACGCAGGTTCACCAGAGAGCAGCCCGCATTCTGATAACGAGTCCGGGGGTCATTACCGAGACCAGGATGCTTCTGTACGGGAACAGGATCGGTTCCTGCCCATCGCGAACGTGAGCCGAATCATGAAGAAGGCGTTGCCGTCTAATGCAAAAATTTCGAAGGACGCGAAAGAGACTGTGCAGGAGTGTGTGTCCGAGTTCATCAGCTTCATCACTGGTGAGGCGTCAGATAAGTGC Nucleotide sequence of the partialSFL-1 from Physcomitrella patens (SEQ ID NO:8)GCACGAGTTTTCTTGTGTCAAAGCAGCAGAAGAAATCCACTTCTGGTAGTATTCAAACATAAAAGAATGGAAACTTATGTAACAGTCTACTTTCTGATCGAAACATTACCAAATGCCTTTTTCCTGGTTTGGTAGGTACTATCAATCAGCAGCAATTAAATAGCGTCAGATTTCACATCTAAGTACTCTCGTAGAATGCTGTTCCGGCTGGGTTGCCTCAGCTTGCGCATCGCTTTTGCCTCAATTTGTCTTATCCTTTCCCGAGTAACTTTAAAGATTTGACCTATTTCTTCTAAAGTCTTGGACCGCCCATCGTCCAATCCAAAACGCAGTCTTAGCACCTCCCTCTCTCTTGGGTTCAATGTGCGTAGAACGCCCTCTATATCTTGTCGCATCAATTGCTTTACGATTGCGTCCTCAGGTGAATCCACATCTGTGTCTGCGACAAGTTCCCCAAGTGTANTGTCCCCATCTTTGCCAATGGGCCGCTCCATCGAACCTGGTGCCTTTGCTGATTTCACTACAGATTTCAGTTTCTCAACAGTCAAGCCCACTAGCTCAGCCACTTCCTCGTTACGTGCTTCCCGCCCATGCTCCTG Nuc leotide sequenceof the full-length APS-2 from Physcomitrella patens (SEQ ID NO:9)GCGATATCGGAAGAAGAACCAAGGGAATGCGGTTAGCGGCGAAAGACACTAGCGGTCGGAATGCCTTTAAATTTCGGAATATTGATTTAAATAAGGCCCCATCGGCATGGGATACCGAAGAAGTTTCTGCTAGCAACACTGGCGATACGACCAGTTTTAGGGGGGTTCGGCACCGGCCCGAGCTAAACAAATGGGTGACAGAAATTCGACCCACATCTCAGAAACGTAAGATATGGCTGGGAACATATGAAACTCCGGAAGAAGCTGCCCGGGCCTACGATGTTGGCATCTTCTACACAAAGAAGAAGATCCCGTACAATTTTGAGGATTCCCCACAGCAGCTGCAGCTATATCCCATCCCCCCGGAACTGCCTTGGGAGAGTTTTGCCGCCCTCGTGAAGCAGAGGGCTACTTCCGCGGCGAAGAGGGCGAGGGTGCCTTCCTCAAGCTAGAGCGATACGCAGCGTAATTGACGCTGGTCGGCTGAGAGAATGATCATCAAGGTGGGTTGTGATGTTCTATGCTCGGATGAGTGGCTTGAAGGGTTCTGGTTCCAACCATGAGAGCATGACGCGAGTCCCACACGGATGGAGCTTGTGAATGGAGTGGTAGACTGTAGATGGTTTTTGTAACGGCTTGAGTAATAACGGAAGCTTCATGGCTTGAATGACCAGCCATGGTGGTGTGCAAGTGAAGATCGCTGCTTGTGTGAAGGTTTCCATCTTTCCCATCCCCGTCTTCCACTTTGCTACACGTTGCTAGTGTCACTTGAACAATTCATTCATGGACCCTGCTCTCCTTTCCCCTGTTACGAAGTTCTTATGGTAGAGTTCACCGAACGCAAGCTGTCTAGGAAGTTGACAGTTTGTGGGAGCCAAAAACTCTACTTGAGCTACTGTGTGCACGCCTTCTGAGTCCTCCAGCGAGGAGCCTGTATATTATTGGATGGTGCAGGATGGGTCGCTTGGTGCCTTTCTCTTTTTCCTTTTCCTCTTTTTGTAAATGGTTTTCCTTCTATGAATATGTGAAGCTCCTCCCACGGAAGCATAG AGCTCGC Nucleotidesequence of the full-length ZF-2 from Physcomitrella patens (SEQ IDNO:10) ATCCCGGGATCAGGAAGCTGTCAAGGAAGAGATGGAAATCTTGCTCCATACAATTACTACGGGCCGCCACCGGGCAGTAACAATTATGTCGTCAACAGCAAGATTATGGTCGTGGCTGTCGCGGTTCTCTTCGCTGTCGTCCTCTTCATCCTCTGCCTCCACATCTACGCCAAGTGGTTCTGGCGCAATCAAGGTGCCATCGTCGCAAGCGATGGCACCTTGCGTACGTTATCATGGCGAAGACGCCGTTACACTGTCCCTGTGAACGCTACTCCGGTGACGCAGGCAGTGGGGCTTGAGCGGGCTGTTATTGAAGCTCTGCCCACTTTCGAATTCGACGGTGAGAGGGCAAAGCGTGTGTTCGAGTGCGCGGTTTGTTTGGAAGAATTTGAGTTGGGTGAGAAAGGCCGCACGTTGCCGAAGTGTGACCATAGTTTCCACTTGGATTGTATTGACATGTGGTTGCACTCGCACTCGACATGCCCGTTGTGTCGCACGAGTGTGGGAGCTGATGAAACTGAGAAGAAGACCGAGGCCGCCACCGTGATGCAGATAAGCGAGCCTCCTCAGATGGAAGCGCCCGTTATGGGTGACGTAGGAGCGCCGTTCATGGCGGCCATGCGAGCTTCCAGGAGGAGCCAACGGAGCCGGGGACAGTTGCCGGCGTTGAATAGTTCCCCAAGAGGCAATAGTTTGCCCCGCACTGCGGAGGATCAGGGCGGGGAGAATCATCGCCGAAGTGGTACGTCGGAAACGGCCGTTGCGGTTGATCAGCAGCAAAACATAAAAGATTACGAGACACCGTCCGGAATCCCGTCCAATGTGTTATTCTGGGGGAATCATGCGCAGATGAGCAGTGCAGGTGCAGGAGGGAGTGCAGAAGCGAGGGCGGCGTCCAGTATTCGTGCGCCGTTTCAGGTTACTATCGACATTCCGAGGTCTGGTCCAGCGGCTGTCAGCAATTCGTCGAATGTTTTGTCGCCGATGGCGCGTGCTTCAGCGAGCTTCCGACGTTTGTTGAGCCGAGGGAAGAGTGTGGTGTCGCCCCAAACTGGAGAAGATGGTGTTGACGAGGGCGGGCCTTCTTCTTCACCCCGTCCACCACCACCACATGCCTGAGGATTTCGTGAGCAGGTGCTGTTAAAGTGGAAATTTTATTCTGGAAGAAAACTGATACTTCCCTGGTAGACATAAATGCCCGACCATGCAAAGGATTTTGTGGGATTTGCACCTGATATCAACCAAGCTATCTAGCGAACGTCACGATTGCGTTGAGTGTTACCCGGCGAAATCCCTAAGCCTACATCGCCGATTACGATGCGCACTTTCCTCAGTAAGGTCAACCTTCGCATTGAGGAGGAAATCGGCGCTTTAGTGCCCACAAAGCATGCCCTTAGATCCCAGATGTGGAATTGCAATGGGAATTGAGAGCAGGGTACACTGCAAGTGCGTTTTAGGATGTGAAGTGTGAGCATTGGAGATCTGCGTCTCTGCCGATTAGGTCAGGTCAGCATCACATTTGACACTGGAGATGCAAAATAGTAGCTATTCCTTCTTCACTTCTTCCGATGGTGTACCGTAGTGTAATATATAGCGCTAGATGTGCAATAAGACGCCACAGTCTGAGGCTCAAGATGTAATATAGATCATGCACGAAGCAGTTAAGCATCTCTAGGTTAGGAGATTGAATGCCACAGTGCTTCAGTAACATGTAGAGTTGTAAATAAACGGGAAATCGCCTTCTGCAAGGCATCTCACTGACACGAACCTAGTGAACATATCAAGGTAATTGCCATTTTACGATAACCAGCTTATTGCAAGGCAAGCGCCAGAGCTCGC Nucleotide sequence of thefull-length ZF-3 from Physcomitrella patens (SEQ ID NO:11)ATCCCGGGAGGAGGACTTGCGGAATGCAAAATCACAATTTGAGCAGGCTCGATTCAATTTGATGACAGCACTTACCAATAGTGAGGCAAAAAAGAAGTTCGAGTTCCTTGAAGCCGTGAGTGGTACAATGGATGCACATCTCAGGTACTTCAAGCAGGGCTATGAGTTGCTACATCAAATGGAACCTTACATCCATCAGGTGTTAACATATGCTCAACAGTCCAGAGAAAGGGCCAACTACGAGCAAGCAGCACTTGCAGATCGTATGCAGGAGTACAGGCAGGAAGTTGAGAGAGAGAGCCAAAGGTCGATTGATTTTGACAGCTCTTCTGGAGATGGTATTCAAGGTGTTGGCCGCAGTTCACATAAGATGATTGAGGCAGTCATGCAATCGACCCCAAAAGGGCAGATCCAGACTCTTAAGCAGGGATACCTGTTAAAGCGTTCAACAAATTTGCGAGGTGACTGGAAGCGGAGGTTTTTTGTGTTGGATAGCAGAGGAATGCTGTATTATTATCGGAAACAGTGGGGCAAGCCTACAGACGAGAAAAATGTAGCACATCACACTGTGAATCTGCTGACGTCTACAATCAAGATAGACGCAGAACAATCAGATCTTCGTTTCTGCTTTCGGATTATTTCTCCAGCTAAAAGTTATACCCTCCAGGCAGAAAATGCCATTGACAGAATGGATTGGATGGACAAAATTACAGGGGTGATTTCGTCGCTTTTAAACAATCAAATATCTGAGCAGGTTGATGGCGAAGATTCAGATGTATCAAGAAGTGGCGCTAGTGATCAATCTGGGCATGAAAGACCCCTTGACGTTTTACGCAAGGTGAAAGGAAATGATGCTTGTGCCGACTGCGGTGCTGCTGATCCCGATTGGGCTTCGCTGAATCTTGGGATTCTTCTGTGTATTGAGTGCTCAGGAGTACACAGAAACATGAGCGTTCAGATTTCTAAGGTCCGTTCGTTGACGTTAGATGTCAAAGTTTGGGAGCCTTCTGTAATGAGCTATTTTCAATCTGTCGGAAACTCCTACGCTAATTCTATATGGGAAGAGCTTTTGAATCCCAAGTCCTCAGAGGAGTCAAGTGAGAGAAACGTTAATGACGAGGGACAATCGGGCGTTTTAAGTGCTAGCAGAGCAAGGCCAAGACCTAGAGACCCCATACCTATCAAAGAAAGATTTATCAATGCAAAGTATGTGGAGAAAAAATTTGTCCAAAAGTTGAAGGTGGATTCTCGAGGCCCGTCAGTGACACGGCAGATCTGGGATGCTGTCCAGAACAAAAAAGTGCAGCTTGCTCTTCGTCTTCTTATCACTGCTGATGCTAACGCCAACACAACCTTCGAGCAAGTAATGGGTGGTACCGAGTCTTCGTGGTCGTCTCCACTTGCAAGCCTCGCTGGAGCTCTCTTACGAAAGAACTCTCTCAGTGCCTCTCAGAGTGGTCGCAGGAACTGGAGCGTACCTTCACTATTGTCTTCTCCAGACGATCCGGGGTCCCGTTCAGGAGCTTTAAGCCCTGTTTCGAGAAGTCCTGATGCAGCAGGCAGCGGAGGGATTGATGAGAAAGATTTGCGGGGCTGCAGTTTGCTCCATGTTGCCTGCCAAATCGGAGATATTAGCCTGATCGAGCTGCTACTTCAATACGGGGCGCAAATCAATTGTGTGGATACCCTGGGTCGAACTCCTCTTCATCACTGTGTCTTGTGCGGCAACAATTCGTGTGCAAAGCTCCTGCTCACAAGAGGGGCGAAGGCGGGTGCCGTAGACAAAGAGGGAAAAACTCCGCTGGAGTGTGCAGTGGAGAAGCTAGGTGCTATCACGGATGAAGAATTGTTCATAATGCTTTCTGAAACCAGTAGATGACACCACATTTGTGCCTGAGTTGCTTTGTGTATAAATCTCAACATCAACTTGTTTCCTAGCACCTGTAAGGCTAGTTTGTTTGGGTAGTTTGCATTCTTGTTCTACCGTTTTATCTTCCCATTACGTCAGCATAAGTAGAGAGTGGAAGCAGGTGGATATCGC Nucleotide sequence of thefull-length ZF-4 from Physcomitrella patens (SEQ ID NO:12)ATCCCGGGCACCAGTCCCGCTTAGTGTGTGTGTCATTAGTGTTGGTTGCAAGTCTGAAGCCTTGAGCGAGATTTGCAGGATTTTCTCATACGCTTCTGATTAGGAAAGATACACCCTTATTAGTCTGTTAAAGATGGCCACCGAGCGTGTGTCTCAGGAGACGACCTCGCAGGCCCCTGAGGGTCCAGTTATGTGCAAGAACCTTTGCGGCTTCTTCGGCAGCCAAGCTACCATGGGGTTGTGCTCGAAGTGCTACCGAGAGACAGTCATGCAAGCGAAGATGACGGCTTTAGCTGAGCAAGCCACTCAGGCTGCTCAGGCGACATCTGCCACAGCTGCTGCTGTTCAGCCCCCCGCTCCTGTACATGAGACCAAGCTCACATGCGAGGTTGAGAGAACAATGATTGTGCCGCATCAATCTTCCAGCTATCAACAAGACCTGGTTACCCCCGCTGCAGCTGCCCCTCAGGCAGTGAAGTCCTCTATCGCAGCTCCCTCTAGACCCGAGCCCAATCGATGCGGATCTTGCAGGAAGCGTGTTGGATTGACAGGATTTAAGTGTCGCTGTGGCAACCTCTACTGCGCTTTACATCGGTACTCGGACAAACACACTTGCACATATGACTACAAAGCCGCAGGGCAGGAAGCGATTGCGAAAGCTAATCCTCTTGTCGTGGCCGAGAAGGTTGTCAAGTTTTGATGAGCATCCGTTAAGCTTTTCTGCCGACGATTTAGGCTTCATACATTGAGTAACTCTACATCTTTCTTCTTTATCGAGAGAGCGAGTCGCATCAAGAGCT CGCC Nucleotidesequence of the full-length ZF-5 from Physcomitrella patens (SEQ IDNO:13) ATCCCGGGTATCGATCTGGAGCCCGTTGCAAACTCAATGGTGTATTTTATAGGGCAAAAGTCTGATCTATATGGAATGCATCCTCTCAGAGTTGCAAATCATGGACTGCATGTCACTCTGGGTTATTCTCGATCACCTAGCTTTGCTGGAGTTCAAATTGGTGAGTACGAGTATTATGAGTGATCTCGAGTTTATGGTCCCCTTCTTTCATGATCAAGGGTAATTTATATCAAGGGTGTATATGAGAGATACGCACTTATTGAGTGGACCTTTTCTCATACTGCATTTACACCCCTGTCAGTTGCAGCATCCTGGTTTGGAATGCCGGGTCCAGTCCCTCTATTATCCATGAGTGTAAAATCGGAGAGTCTCGATGACATTGGAGGTCACGAGAAAAAATCTGTAACTGGGTCGGAAGTGGGTGGCCTCGATGCTCAGCTGTGGCATGCCTGTGCTGGGGGTATGGTTCAACTGCCTCATGTGGGTGCTAAGGTTGTCTATTTTCCCCAAGGCCATGGCGAACAAGCTGCTTCAACTCCCGAGTTCCCCCGCACTTTGGTTCCAAATGGAAGTGTTCCCTGCCGAGTTGTGTCAGTTAACTTTCTGGCTGATACAGAAACAGACGAGGTATTTGCTCGTATTTGCCTGCAGCCTGAGATTGGCTCCTCCGCTCAGGATTTAACAGATGATTCTCTTGCGTCTCCGCCTCTAGAGAAACCAGCTTCATTTGCCAAAACGCTCACTCAAAGTGATGCAAACAACGGTGGAGGCTTTTCAATACCTCGTTATTGTGCTGAAACTATTTTCCCACCTCTCGATTACTGTATCGATCCTCCTGTTCAAACTGTTCTTGCAAAAGATGTCCATGGAGAGGTGTGGAAATTTCGTCACATTTACAGGGGGACTCCACGTCGACATTTGTTAACCACAGGATGGAGCACATTTGTCAATCAAAAGAAGTTAGTTGCGGGTGATGCTATTGTATTTCTTCGCATCGCATCTGGCGAACTTTGTGTCGGCGTGCGCCGTTCAATGAGGGGTGTCAGCAACGGAGAATCCTCATCTTGGCACTCCTCAATCAGTAATGCTTCAACGATTCGGCCATCTCGATGGGAGGTGAAGGGCACAGAAAGTTTCTCGGACTTTTTAGGTGGCGTTGGTGATAATGGGTACGCACTGAATAGCTCAATTCGGTCTGAAAACCAGGGCTCTCCAACAACGAGTAGCTTTGCACGGGACCGTGCTCGTGTTACTGCGAAGTCCGTTCTAGAAGCTGCTGCACTCGCCGTCTCCGGTGAACGTTTTGAGGTTGTGTATTATCCTCGTGCTAGCACAGCTGAGTTCTGTGTCAAAGCTGGGCTTGTTAAACGTGCGCTAGAGCAATCGTGGTACGCTGGAATGCGCTTCAAAATGGCATTTGAAACTGAAGACTCCTCGAGGATAAGCTGGTTTATGGGAACTATTGCTGCTGTTCAAGCAGCAGATCCAGTACTTTGGCCTAGTTCTCCATGGCGGGTTCTGCAGGTCACTTGGGATGAGCCGGACCTATTGCAGGGAGTGAATCGTGTAAGCCCATGGCAGTTAGAGCTTGTGGCGACACTTCCTATGCAGCTGCCCCCTGTCTCTCTTCCCAAAAAGAAACTGCGCACTGTCCAGCCTCAAGAGCTTCCACTTCAGCCCCCTGGACTGCTAAGCCTGCCGTTGGCAGGGACTAGCAACTTTGGTGGGCACTTGGCCACCCCCTGGGGCAGCTCTGTTCTTTTGGATGACGCCTCTGTTGGCATGCAGGGGGCCAGGCATGATCAATTCAACGGGCTTCCAACTGTGGATTTCCGAAATAGTAACTACAAACATCCTCGGGAGTTTTCTAGGGACAATCAGTACCAGATTCAAGATCATCAAGTCTTCCATCCTAGACCTGTATTAAATGAGCCCCCTGCGACAAACACTGGCAACTACTTCTCTCTTTTACCTAGTCTCCAGCGACGGCCAGATATCTCTCCTAGTATTCAGCCCTTAGCCTTCATGTCTGCTTCTGGAAGCTCACAGCTGGAGACTTCTTCAACTAAGACAGCGGCCACCTCTTTTTTCCTATTTGGCCAATTCATTGACCCTTCTTGCACCTCCAAACCTCAGCAGCGTTCCACAGTTATTAATAACGCTTCCGTTGCTGGGGATGGTAAGCATCCTGGCACTAATAACTCATCCTCGGATAACAAATCAGAGGACAAGGACAATTGTAGGGATGTTCAACCCATTCTGAATGGGATTGCTGTAAGATCTGGATTTCGAGCAGATATAGCCGCGAAGAAGTTTCAACAGAGCGACTCTGCACATCCCACGGAAGCATCACGTGGAAGCCAAGTTAGCAGCTTACCGTGGTGGCAAACACAGGACGCTCACAAGGATCAGGAATTCCATGGAGACAGTCAGACGCCTCATACTCCTGCATCTGGTAGCCAATGAGGCTAAAGCTTGATCATAGCTCATAACCCTCTCACAGGACGTAATGGGGGTGACAACATGCTAACAGAATTGCACGGTAAAGGAAAACTGTACTAGGCATGTTATATGGGAATTCGGATCGCTTCTTGCAATTAAACACGCTAGCGCCGTTTGGTGCCAATGTTATTCTGGCATTTGTTTTGTTTCCTTTGGAAACAAATTGCTATATTTCAAAGTCCTTTGGAGGAGCTCGC Nucleotide sequence ofthe full-length MYB-1 from Physcomitrella patens (SEQ ID NO:14)ATCCCGGGCTGTTGTGTACAGTCTGTGGAGAGCTGTAGAAAATTCAATTCCGATTTCAAAATATCCAGCGACGATGACACGGAACATGGGAGTTTGGAGGACGACATGAAGGAGTTGAACGAAGACATGGAAATTCCCTTAGGTCGAGATGGCGAGGGTATGCAGTCAAAGCAGTGCCCGCGCGGCCACTGGCGTCCAGCGGAAGACGACAAGTTGCGAGAACTAGTGTCCCAGTTTGGACCTCAAAACTGGAATCTCATAGCAGAGAAACTTCAGGGTCGATCAGGGAAAAGCTGCAGGCTACGGTGGTTCAATCAGCTGGACCCTCGCATCAACCGGCACCCATTCTCGGAAGAAGAGGAAGAGCGGCTGCTTATAGCACACAAGCGCTACGGCAACAAGTGGGCATTGATCGCGCGCCTCTTTCCGGGCCGCACAGACAACGCGGTGAAGAATCACTGGCACGTTGTGACGGCAAGACAGTCCCGTGAACGGACACGAACTTACGGCCGTATCAAAGGTCCGGTACATCGAAGAGGCAAGGGTAACCGTATCAATACCTCCGCACTTGGAAATTACCATCACGATTCGAAGGGAGCTCTCACAGCCTGGATTGAGTCGAAGTATGCGACAGTCGAGCAGTCTGCGGAAGGGCTCGCTAGGTCTCCTTGTACCGGCAGAGGCTCTCCTCCTCTACCCACCGGTTTCAGTATACCGCAGATTTCCGGCGGCGCCTTCCATCGACCGACAAACATGAGTACTAGTCCTCTTAGCGATGTGACTATCGAGTCGCCAAAGTTTAGCAACTCCGAAAATGCGCAAATAATAACCGCGCCCGTCCTGCAAAAGCCAATGGGAGATCCCAGGTCAGTATGCTTGCCGAATTCGACTGTTTCCGACAAGCAGCAAGTGCTGCAGAGTAATTCCATCGACGGTCAGATCTCCTCCGGGCTCCAGACAAGCGCAATAGTAGCGCATGATGAGAAATCGGGCGTCATTTCAATGAATCATCAAGCACCGGATATGTCCTGTGTTGGATTGAAGTCAAATTTTCAGGGGAGTCTCCATCCTGGCGCTGTTAGATCTTCTTGGAATCAATCCCTTCCCCACTGTTTTGGCCACAGTAACAAGTTGGTGGAGGAGTGCAGGAGTTCTACAGGCGCATGCACTGAACGCTCTGAGATTCTGCAAGAACAGCATTCTAGCCTTCAGTTTAAATGCAGCACTGCGTACAATACTGGAAGATATCAACATGAAAACCTTTGTGGGCCAGCATTCTCGCAACAAGACACAGCGAACGAGGTTGCGAATTTTTCTACGTTGGCATTCTCCGGCCTAGTGAAGCATCGCCAAGAGAGGTTGTGCAAAGATAGTGGATCTGCTCTCAAGCTGGGACTATCATGGGTTACATCCGATAGCACTCTTGACTTGAGTGTTGCCAAAATGTCAGCATCGCAGCCAGAGCAGTCTGCGCCGGTTGCATTCATTGATTTTCTAGGCGTGGGAGCGGCCTGAAGGCTGCGGAAAGATTTTAGCAAAGCTTTTATAACGTTTTTTTTGCACAGGGCTGTTTTTAGCTTGTATACCAGTAGGCACTTCTACTTCTTTTTCTTCTTTTCTTTTTCCCCTTTTCTTCTCCCCCCACTTTCACCATTTCCGCCATAGCAGCCTTTGAATCACGTAATGGAACCTTTGGCGGCCTGTATGAGGCACTTTTGGAGGCATCCCTGGACGAAGAATGGATCAAACCGTACTGCGGATGTCATGCTTTGAAGCTGCAATCCGAATTCAGTAGCATGCTGTGGATGACTCAAAAGGAGTAGCTGCTTTGTGAAACTAATACTATACAGCGGATTTTGAAGACCCAAGTTTCATGTGGACAAGTCTGAAAAACTTATACGCCACCTCCATGGGCTTCTACGATGAATATGCGCTTTCGGCTTACACTGCGGCTCTTTTTTGCATATATATATACTTCCATTCAATTTTATTTGGAAATGTTTTGAATCTACCTTCTCGTACAAAACTGGGATCAGAAATCTTCCAGGTTGTGGGTCGCAAGTTAACTCTGCAGATTGTGGCTGACACTTGGGCAATCGGCAACTTTATCTTTTTGTTTTTTACGCTTGAACGGACCTCAGCTGTACAGACACTCATCATGTACATTCGATGCCATCTCTTGGCTTTCATGGAAGTTCAGATATCGGAAACTGTGACAGAGACAGAGAGAGAGAGAGAGAGAGAGAGAGAGAGATTCTTGATGCACTGTGCGCCGAGTTTGAGACTAGTTTAGAAAGATTGATGAAGCTAGCAGTAAATTGTTGGCCTCATCTGAAAGGTACGGCCTTTA CTCCGTGAGCCCGGGATNucleotide sequence of the full-length CABF-3 from Physcomitrella patens(SEQ ID NO:15) ATCCCGGGCAGCGAGCACACAGCTAGCAACTCTTTCGGAGAATACTCCAGGCGAAATTGGTCGGATGGCCGATAGCTACGGTCACAACGCAGGTTCACCAGAGAGCAGCCCGCATTCTGATAACGAGTCCGGGGGTCATTACCGAGACCAGGATGCTTCTGTACGGGAACAGGATCGGTTCCTGCCCATCGCGAACGTGAGCCGAATCATGAAGAAGGCGTTGCCGTCTAATGCAAAAATTTCGAAGGACGCGAAAGAGACTGTGCAGGAGTGTGTGTCCGAGTTCATCAGCTTCATCACTGGTGAGGCGTCAGATAAGTGCCAGAGGGAGAAGAGAAAGACGATCAACGGTGACGACTTGCTGTGGGCCATGAGTACACTTGGTTTCGAAGATTACGTGGAGCCTCTGAAGGTTTACCTACACAAATACCGGGAGCTAGAGGGAGAGAAGGCTTCCACGGCCAAGGGTGGTGACCAGCAAGGAGGGAAAGAAGGGAGTCAAGGTGTTATGGGGTCCATGGGTATGTCGGGCGGAATGAACGGTATGAACGGTACGATGAACGGGAATATGCATGGACATGGAATCCCGGTGTCGATGCAGATGCTGCAGCAGTCGTACGGACAGCAGGCACCTCCAGGGATGATGTATTCCCCTCATCAGATGATGCCGCAATACCAGATGCCAATGCAGTCTGGTGGAAACCAGCCTCGTGGAGTGTAGGAGGTTCCACGGCGAGGAGAATTTGAAATTGGGGAGATTGTCAACCGCGTGAGGGAGTGAGCTCGC Nucleotide sequence of thefull-length SFL-1- from Physcomitrella patens (SEQ ID NO:16)ATCCCGGGCTCGGAAGGACTGTGCATTGTCGAGCGCTGAAGGTGGATGATGCTTTGGTGACCGAGAGCGGTCTTATCAGTGAAGAAGGAGTTTCTCGTGCTGCAGCTGAGGAGGCGATGACGTTAGCTTTAGCAGCTGCAAAGGCCGCCATGGAGGCTGCCTCGTACGCTGATGCGATGCCGTGGAACAGGAGGAGTTTCCGACGGAATTTGATCTGCTGAGACTAGAGAGGGCCAGGTTGAGCGATGTTGAGCATTCTTTTCGGGTTGAATTGGATACAGAGGCTGCCATGATGGAGGCCGAGCAGAGTTATGTGCAGAAGCTAGAATCGTTGTTGGGAGGTGTTTCCACGCTCGTCCGTGAGGAAGAGGAAACTGCATCCGTTTCAGAAGATGAAGATGATTCAAACAGCTTACCTCAAATTCAAGTAGCCGTTAAATCGAAGCGGAAGGGAGAGAGGAGGAAGAGGCGGGAGCGAGCGTTGGAAAGGGCAGAGAAGGTTGCCACCGATCTTGCATCAGCACCCCCTCTCCCAAAACCTAAGAAACCACAGCTTGCGGCGGATCCTTCAGACCCAGTCCGTGCATATTTGCGAGACATAGGAAGGACGAAGTTGCTAACAGCAAGAGAAGAAGTCGATCTCTCTCATCAAATTCAGGATCTTTTGAAGTTGGAGAATATCAAGTCTAACCTTGAGCGAGAGATAGGAAGGAATGCCACAATTGGAGAGTGGAGTAGAGCGGTAGGAATGGAACAGAATGCATTTGAAGCGCGGCTTAAGAAGGGTCGATTCGCCAAGGACAAAATGGTGAATTCGAATTTGCGGTTGGTTGTCTCGATTGCGAAAAACTACCAGGGCCGAGGCATGACTCTTCAAGATTTAATTCAGGAAGGGAGCATGGGATTGGTGAGAGGAGCGGAGAAGTTCGACCCGACCAAGGGGTTTAAGTTCAGCACTTACGCACATTGGTGGATTAGGCAGGCTGTAACGCGATCAATTGCGGATCAATCTAGGACTTTTCGTTTACCTATTCATTTATACGAAGTTATCTCACGTATCAACAAAGCAAAGCGAATGCTGGTTCAGGAGCATGGGCGGGAAGCACGTAACGAGGAAGTGGCTGAGCTAGTGGGCTTGACTGTTGAGAAACTGAAATCTGTAGTGAAATCAGCAAAGGCACCAGGTTCGATGGAGCGGCCCATTGGCAAAGATGGGGACACTACACTTGGGGAACTTGTCGCAGACACAGATGTGGATTCACCTGAGGACGCAATCGTAAAGCAATTGATGCGACAAGATATAGAGGGCGTTCTACGCACATTGAACCCAAGAGAGAGGGAGGTGCTAAGACTGCGTTTTGGATTGGACGATGGGCGGTCCAAGACTTTAGAAGAAATAGGTCAAATCTTTAAAGCTACTCGGGAAAGGATAAGACAAATTGAGGCAAAAGCGATGCGCAAGCTGAGGCAACCCAGCCGGAACAGCATTCTACGAGAGTACTTAGATGTGAAATCTGACGCTATTTAATTGCTGCTGATTGATAGTACCTACCAAACCAGGAAAAAGGCATTTGGTAATGTTTCGATCAGAAAGTAGACTGTTACATAAGTTTCCATTCTTTTATGTTTGAATACTACCAGAAGTGGATT TCTTCTGCTGCGAGCTCGCDeduced amino acid sequence of APS-2 from Physcomitrella patens (SEQ IDNO:17) MRLAAKDTSGRNAFKFRNIDLNKAPSAWDTEEVSASNTGDTTSFRGVRHRPELNKWVTEIRPTSQKRKIWLGTYETPEEAARAYDVGIFYTKKKIPYNFEDSPQQLQLYPIPPELPWESFAALVKQRATSAAKRARVPSSS* Deduced amino acid sequenceof ZF-2 from Physcomitrella patens (SEQ ID NO:18)MVVAVAVLFAVVLFILCLHIYAKWFWRNQGAIVASDGTLRTLSWRRRRYTVPVNATPVTQAVGLERAVIEALPTFEFDGERAKRVFECAVCLEEFELGEKGRTLPKCDHSFHLDCIDMWLHSHSTCPLCRTSVGADETEKKTEAATVMQISEPPQMEAPVMGDVGAPFMAAMRASRRSQRSRGQLPALNSSPRGNSLPRTAEDQGGENHRRSGTSETAVAVDQQQNIKDYETPSGIPSNVLFWGNHAQMSSAGAGGSAEARAASSIRAPFQVTIDIPRSGPAAVSNSSNVLSPMARASASFRRLLSRGKSVVSPQTGEDGVDEGGPSSSPRPPPPHA* Deduced amino acid sequence ofZF-3 from Physcomitrella patens (SEQ ID NO:19)MTALTNSEAKKKFEFLEAVSGTMDAHLRYFKQGYELLHQMEPYIHQVLTYAQQSRERANYEQAALADRMQEYRQEVERESQRSIDFDSSSGDGIQGVGRSSHKMIEAVMQSTPKGQIQTLKQGYLLKRSTNLRGDWKRRFFVLDSRGMLYYYRKQWGKPTDEKNVAHHTVNLLTSTIKIDAEQSDLRFCFRIISPAKSYTLQAENAIDRMDWMDKITGVISSLLNNQISEQVDGEDSDVSRSGASDQSGHERPLDVLRKVKGNDACADCGAADPDWASLNLGILLCIECSGVHRNMSVQISKVRSLTLDVKVWEPSVMSYFQSVGNSYANSIWEELLNPKSSEESSERNVNDEGQSGVLSASRARPRPRDPIPIKERFINAKYVEKKFVQKLKVDSRGPSVTRQIWDAVQNKKVQLALRLLITADANANTTFEQVMGGTESSWSSPLASLAGALLRKNSLSASQSGRRNWSVPSLLSSPDDPGSRSGALSPVSRSPDAAGSGGIDEKDLRGCSLLHVACQIGDISLIELLLQYGAQINCVDTLGRTPLHHCVLCGNNSCAKLLLTRGAKAGAVKKEGKTPLECAVEKLGAITDEELFIML SETSR* Deduced aminoacid sequence of ZF-4 from Physcomitrella patens (SEQ ID NO:20)MATERVSQETTSQAPEGPVMCKNLCGFFGSQATMGLCSKCYRETVMQAKMTALAEQATQAAQATSATAAAVQPPAPVHETKLTCEVERTMIVPHQSSSYQQDLVTPAAAAPQAVKSSIAAPSRPEPNRCGSCRKRVGLTGFKCRCGNLYCALHRYSDKHTCTYDYKAAGQEAIAKANPLVVAEKVVKF* Deduced amino acid sequence ofZF-5 from Physcomitrella patens (SEQ ID NO:21)MPGPVPLLSMSVKSESLDDIGGHEKKSVTGSEVGGLDAQLWHACAGGMVQLPHVGAKVVYFPQGHGEQAASTPEFPRTLVPNGSVPCRVVSVNFLADTETDEVFARICLQPEIGSSAQDLTDDSLASPPLEKPASFAKTLTQSDANNGGGFSIPRYCAETIFPPLDYCIDPPVQTVLAKDVHGEVWKFRHIYRGTPRRHLLTTGWSTFVNQKKLVAGDAIVFLRIASGELCVGVRRSMRGVSNGESSSWHSSISNASTIRPSRWEVKGTESFSDFLGGVGDNGYALNSSIRSENQGSPTTSSFARDRARVTAKSVLEAAALAVSGERFEVVYYPRASTAEFCVKAGLVKRALEQSWYAGMRFKMAFETEDSSRISWFMGTIAAVQAADPVLWPSSPWRVLQVTWDEPDLLQGVNRVSPWQLELVATLPMQLPPVSLPKKKLRTVQPQELPLQPPGLLSLPLAGTSNFGGHLATPWGSSVLLDDASVGMQGARHDQFNGLPTVDFRNSNYKHPREFSRDNQYQIQDHQVFHPRPVLNEPPATNTGNYFSLLPSLQRRPDISPSIQPLAFMSASGSSGLETSSTKTAATSFFLFGQFIDPSCTSKPQQRSTVINNASVAGDGKHPGTNNSSSDNKSEDKDNCRDVQPILNGIAVRSGFRADIAAKKFQQSDSAHPTEASRGSQVSSLPWWQTQDAHKDQEFH GDSQTPHTPASGSQ*Deduced amino acid sequence of MYB-1 from Physcomitrella patens (SEQ IDNO:22) MKELNEDMEIPLGRDGEGMQSKQCPRGHWRPAEDDKLRELVSQFGPQNWNLIAEKLQGRSGKSCRLRWFNQLDPRINRHPFSEEEEERLLIAHKRYGNKWALIARLFPGRTDNAVKNHWHVVTARQSRERTRTYGRIKGPVHRRGKGNRINTSALGNYHHDSKGALTAWIESKYATVEQSAEGLARSPCTGRGSPPLPTGFSIPQISGGAFHRPTNMSTSPLSDVTIESPKFSNSENAQIITAPVLQKPMGDPRSVCLPNSTVSDKQQVLQSNSIDGQISSGLQTSAIVAHDEKSGVISMNHQAPDMSCVGLKSNFQGSLHPGAVRSSWNQSLPHCFGHSNKLVEECRSSTGACTERSEILQEQHSSLQFKCSTAYNTGRYQHENLCGPAFSQQDTANEVANFSTLAFSGLVKHRQERLCKDSGSALKLGLSWVTSDSTLDLSVAKMSAS QPEQSAPVAFIDFLGVGAA*Deduced amino acid sequence of CABF-3 from Physcomitrella patens (SEQ IDNO:23) MADSYGHNAGSPESSPHSDNESGGHYRDQDASVREQDRFLPIANVSRIMKKALPSNAKISKDAKETVQECVSEFISFITGEASKDCQREKRKTINGDDLLWAMSTLGFEDYVEPLKVYLHKYRELEGEKASTAKGGDQQGGKEGSQGVMGSMGMSGGMNGMNGTMNGNMHGHGIPVSMQMLQQSYGQQAPPGMMYSPHQM MPQYQMPMQSGGNQPRGVDeduced amino acid sequence of SFL-1 from Physcomitrella patens (SEQ IDNO:24) MMEAEQSYVQKLESLLGGVSTLVREEEETASVSEDEDDSNSLPQIQVAVKSKRKGERRKRRERALERAEKVATDLASAPPLPKPKKPQLAADPSDPVRAYLRDIGRTKLLTAREEVDLSHQIQDLLKLENIKSNLEREIGRNATIGEWSRAVGMEQNAFEARLKKGRFAKDKMVNSNLRLVVSIAKNYQGRGMTLQDLIQEGSMGLVRGAEKFDPTKGFKFSTYAHWWIRQAVTRSIADQSRTFRLPIHLYEVISRINKAKRMLVQEHGREARNEEVAELVGLTVEKLKSVVKSAKAPGSMERPIGKDGDTTLGELVADTDVDSPEDAIVKQLMRQDIEGVLRTLNPREREVLRLRFGLDDGRSKTLEEIGQIFKATRERIRQIEAKAMRKLRQPSRNSI LREYLDVKSDAI*

1. A transgenic plant cell transformed with an isolated polynucleotideselected from the group consisting of: a) a polynucleotide having asequence as set forth in SEQ ID NO:9; and b) a polynucleotide encoding apolypeptide having a sequence as set forth in SEQ ID NO:17.
 2. The plantcell of claim 1, wherein the polynucleotide has the sequence as setforth in SEQ ID NO:9.
 3. The plant cell of claim 1, wherein thepolynucleotide encodes the polypeptide having the sequence as set forthin SEQ ID NO:17.
 4. A transgenic plant transformed with an isolatedpolynucleotide selected from the group consisting of: a) apolynucleotide having a sequence as set forth in SEQ ID NO:9; and b) apolynucleotide encoding a polypeptide having a sequence as set forth inSEQ ID NO:17.
 5. The plant of claim 4, wherein the polynucleotide hasthe sequence as set forth in SEQ ID NO:9.
 6. The plant of claim 4,wherein polynucleotide encodes the polypeptide having the sequence asset forth in SEQ ID NO:17.
 7. The plant of claim 4, wherein the plant isa monocot.
 8. The plant of claim 4, wherein the plant is a dicot.
 9. Theplant of claim 4, wherein the plant is selected from the groupconsisting of maize, wheat, rye, oat, triticale, rice, barley, soybean,peanut, cotton, rapeseed, canola, manihot, pepper, sunflower, tagetes,potato, tobacco, eggplant, tomato, Vicia species, pea, alfalfa, coffee,cacao, tea, Salix species, oil palm, coconut, perennial grasses, and aforage crop plant.
 10. A seed which is true breeding for a transgenecomprising a polynucleotide selected from the group consisting of: a) apolynucleotide having a sequence as set forth in SEQ ID NO:9; and b) apolynucleotide encoding a polypeptide having a sequence as set forth inSEQ ID NO:17.
 11. The seed of claim 10, wherein the polynucleotide hasthe sequence as set forth in SEQ ID NO:9.
 12. The seed of claim 10,wherein the polynucleotide encodes the polypeptide having the sequenceas set forth in SEQ ID NO:17.
 13. An isolated nucleic acid comprising apolynucleotide selected from the group consisting of: a) apolynucleotide having a sequence as set forth in SEQ ID NO:9; and b) apolynucleotide encoding a polypeptide having a sequence as set forth inSEQ ID NO:17.
 14. The isolated nucleic acid of claim 13, wherein thepolynucleotide has the sequence as set forth in SEQ ID NO:9.
 15. Theisolated nucleic acid of claim 13, wherein the polynucleotide encodesthe polypeptide having the sequence as set forth in SEQ ID NO:17.
 16. Amethod of producing a drought-tolerant transgenic plant, the methodcomprising the steps of: a) transforming a plant cell with an expressionvector comprising a polynucleotide encoding a polypeptide having asequence as set forth in SEQ ID NO:17; b) growing the transformed plantcell to generate transgenic plants; and c) screening the transgenicplants generated in step b) to identify a transgenic plant thatexpresses the polypeptide and exhibits increased tolerance to droughtstress as compared to a wild type variety of the plant.
 17. The methodof claim 16, wherein the polynucleotide has a sequence as set forth inSEQ ID NO:9.